-- dump date 20140619_070029 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1288122000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1288122000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1288122000003 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122000004 Walker A motif; other site 1288122000005 ATP binding site [chemical binding]; other site 1288122000006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1288122000007 Walker B motif; other site 1288122000008 arginine finger; other site 1288122000009 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 1288122000010 DnaA box-binding interface [nucleotide binding]; other site 1288122000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1288122000012 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 1288122000013 putative DNA binding surface [nucleotide binding]; other site 1288122000014 dimer interface [polypeptide binding]; other site 1288122000015 beta-clamp/clamp loader binding surface; other site 1288122000016 beta-clamp/translesion DNA polymerase binding surface; other site 1288122000017 recombination protein F; Reviewed; Region: recF; PRK00064 1288122000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122000019 Walker A/P-loop; other site 1288122000020 ATP binding site [chemical binding]; other site 1288122000021 Q-loop/lid; other site 1288122000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122000023 ABC transporter signature motif; other site 1288122000024 Walker B; other site 1288122000025 D-loop; other site 1288122000026 H-loop/switch region; other site 1288122000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1288122000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122000029 ATP binding site [chemical binding]; other site 1288122000030 Mg2+ binding site [ion binding]; other site 1288122000031 G-X-G motif; other site 1288122000032 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1288122000033 anchoring element; other site 1288122000034 dimer interface [polypeptide binding]; other site 1288122000035 ATP binding site [chemical binding]; other site 1288122000036 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 1288122000037 active site 1288122000038 putative metal-binding site [ion binding]; other site 1288122000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1288122000040 sugar phosphate phosphatase; Provisional; Region: PRK10513 1288122000041 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122000042 active site 1288122000043 motif I; other site 1288122000044 motif II; other site 1288122000045 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122000046 Protein of unknown function (DUF3748); Region: DUF3748; pfam12566 1288122000047 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1288122000048 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1288122000049 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1288122000050 putative dimer interface [polypeptide binding]; other site 1288122000051 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1288122000052 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1288122000053 putative dimer interface [polypeptide binding]; other site 1288122000054 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 1288122000055 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122000056 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000057 homodimer interface [polypeptide binding]; other site 1288122000058 catalytic residue [active] 1288122000059 Protein of unknown function (DUF3053); Region: DUF3053; pfam11254 1288122000060 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1288122000061 DALR anticodon binding domain; Region: DALR_1; pfam05746 1288122000062 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1288122000063 dimer interface [polypeptide binding]; other site 1288122000064 motif 1; other site 1288122000065 active site 1288122000066 motif 2; other site 1288122000067 motif 3; other site 1288122000068 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1288122000069 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1288122000070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122000071 Coenzyme A binding pocket [chemical binding]; other site 1288122000072 Predicted membrane protein [Function unknown]; Region: COG2119 1288122000073 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1288122000074 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 1288122000075 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1288122000076 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122000077 ligand binding site [chemical binding]; other site 1288122000078 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 1288122000079 CPxP motif; other site 1288122000080 hypothetical protein; Provisional; Region: PRK11212 1288122000081 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1288122000082 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1288122000083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122000084 Coenzyme A binding pocket [chemical binding]; other site 1288122000085 hypothetical protein; Provisional; Region: PRK11615 1288122000086 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1288122000087 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 1288122000088 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 1288122000089 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1288122000090 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1288122000091 generic binding surface II; other site 1288122000092 ssDNA binding site; other site 1288122000093 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122000094 ATP binding site [chemical binding]; other site 1288122000095 putative Mg++ binding site [ion binding]; other site 1288122000096 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122000097 nucleotide binding region [chemical binding]; other site 1288122000098 ATP-binding site [chemical binding]; other site 1288122000099 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1288122000100 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1288122000101 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1288122000102 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1288122000103 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1288122000104 Zn2+ binding site [ion binding]; other site 1288122000105 Mg2+ binding site [ion binding]; other site 1288122000106 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1288122000107 synthetase active site [active] 1288122000108 NTP binding site [chemical binding]; other site 1288122000109 metal binding site [ion binding]; metal-binding site 1288122000110 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1288122000111 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1288122000112 DNA-directed RNA polymerase, omega subunit; Region: rpoZ; TIGR00690 1288122000113 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1288122000114 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 1288122000115 catalytic site [active] 1288122000116 G-X2-G-X-G-K; other site 1288122000117 Predicted membrane protein [Function unknown]; Region: COG2860 1288122000118 UPF0126 domain; Region: UPF0126; pfam03458 1288122000119 UPF0126 domain; Region: UPF0126; pfam03458 1288122000120 hypothetical protein; Provisional; Region: PRK11820 1288122000121 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1288122000122 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1288122000123 ribonuclease PH; Reviewed; Region: rph; PRK00173 1288122000124 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1288122000125 hexamer interface [polypeptide binding]; other site 1288122000126 active site 1288122000127 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122000128 active site 1288122000129 division inhibitor protein; Provisional; Region: slmA; PRK09480 1288122000130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122000131 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1288122000132 trimer interface [polypeptide binding]; other site 1288122000133 active site 1288122000134 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1288122000135 Flavoprotein; Region: Flavoprotein; pfam02441 1288122000136 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1288122000137 hypothetical protein; Reviewed; Region: PRK00024 1288122000138 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1288122000139 MPN+ (JAMM) motif; other site 1288122000140 Zinc-binding site [ion binding]; other site 1288122000141 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1288122000142 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1288122000143 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1288122000144 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1288122000145 DNA binding site [nucleotide binding] 1288122000146 catalytic residue [active] 1288122000147 H2TH interface [polypeptide binding]; other site 1288122000148 putative catalytic residues [active] 1288122000149 turnover-facilitating residue; other site 1288122000150 intercalation triad [nucleotide binding]; other site 1288122000151 8OG recognition residue [nucleotide binding]; other site 1288122000152 putative reading head residues; other site 1288122000153 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1288122000154 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1288122000155 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1288122000156 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1288122000157 active site 1288122000158 (T/H)XGH motif; other site 1288122000159 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1288122000160 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1288122000161 putative metal binding site; other site 1288122000162 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1288122000163 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1288122000164 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1288122000165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122000166 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 1288122000167 putative ADP-binding pocket [chemical binding]; other site 1288122000168 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1288122000169 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1288122000170 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 1288122000171 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1288122000172 putative active site [active] 1288122000173 Putative catalytic domain of lipopolysaccharide biosynthesis protein WalW and its bacterial homologs; Region: CE4_WalW; cd10935 1288122000174 putative active site [active] 1288122000175 putative catalytic site [active] 1288122000176 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1288122000177 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122000178 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1288122000179 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122000180 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122000181 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1288122000182 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 1288122000183 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1288122000184 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1288122000185 putative active site [active] 1288122000186 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 1288122000187 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 1288122000188 putative active site [active] 1288122000189 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 1288122000190 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 1288122000191 NADP binding site [chemical binding]; other site 1288122000192 homopentamer interface [polypeptide binding]; other site 1288122000193 substrate binding site [chemical binding]; other site 1288122000194 active site 1288122000195 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1288122000196 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1288122000197 substrate-cofactor binding pocket; other site 1288122000198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000199 catalytic residue [active] 1288122000200 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1288122000201 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1288122000202 NAD(P) binding site [chemical binding]; other site 1288122000203 putative ATP-dependent protease; Provisional; Region: PRK09862 1288122000204 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1288122000205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122000206 Walker A motif; other site 1288122000207 ATP binding site [chemical binding]; other site 1288122000208 Walker B motif; other site 1288122000209 arginine finger; other site 1288122000210 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1288122000211 putative sialic acid transporter; Region: 2A0112; TIGR00891 1288122000212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122000213 putative substrate translocation pore; other site 1288122000214 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 1288122000215 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1288122000216 PYR/PP interface [polypeptide binding]; other site 1288122000217 dimer interface [polypeptide binding]; other site 1288122000218 TPP binding site [chemical binding]; other site 1288122000219 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1288122000220 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1288122000221 TPP-binding site [chemical binding]; other site 1288122000222 dimer interface [polypeptide binding]; other site 1288122000223 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 1288122000224 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1288122000225 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 1288122000226 homodimer interface [polypeptide binding]; other site 1288122000227 substrate-cofactor binding pocket; other site 1288122000228 catalytic residue [active] 1288122000229 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1288122000230 threonine dehydratase; Reviewed; Region: PRK09224 1288122000231 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1288122000232 tetramer interface [polypeptide binding]; other site 1288122000233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000234 catalytic residue [active] 1288122000235 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 1288122000236 putative Ile/Val binding site [chemical binding]; other site 1288122000237 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 1288122000238 putative Ile/Val binding site [chemical binding]; other site 1288122000239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122000240 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 1288122000241 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122000242 dimerization interface [polypeptide binding]; other site 1288122000243 ketol-acid reductoisomerase; Validated; Region: PRK05225 1288122000244 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1288122000245 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1288122000246 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1288122000247 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1288122000248 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1288122000249 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 1288122000250 Part of AAA domain; Region: AAA_19; pfam13245 1288122000251 Family description; Region: UvrD_C_2; pfam13538 1288122000252 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 1288122000253 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1288122000254 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1288122000255 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1288122000256 ATP binding site [chemical binding]; other site 1288122000257 Mg++ binding site [ion binding]; other site 1288122000258 motif III; other site 1288122000259 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122000260 nucleotide binding region [chemical binding]; other site 1288122000261 ATP-binding site [chemical binding]; other site 1288122000262 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1288122000263 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1288122000264 catalytic residues [active] 1288122000265 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1288122000266 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1288122000267 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1288122000268 RNA binding site [nucleotide binding]; other site 1288122000269 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1288122000270 multimer interface [polypeptide binding]; other site 1288122000271 Walker A motif; other site 1288122000272 ATP binding site [chemical binding]; other site 1288122000273 Walker B motif; other site 1288122000274 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 1288122000275 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1288122000276 Mg++ binding site [ion binding]; other site 1288122000277 putative catalytic motif [active] 1288122000278 substrate binding site [chemical binding]; other site 1288122000279 lipopolysaccharide biosynthesis protein WzzE; Provisional; Region: PRK11638 1288122000280 Chain length determinant protein; Region: Wzz; cl15801 1288122000281 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1288122000282 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1288122000283 active site 1288122000284 homodimer interface [polypeptide binding]; other site 1288122000285 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 1288122000286 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1288122000287 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1288122000288 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1288122000289 dTDP-glucose 4,6-dehydratase; Provisional; Region: PRK10217 1288122000290 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1288122000291 NAD binding site [chemical binding]; other site 1288122000292 substrate binding site [chemical binding]; other site 1288122000293 homodimer interface [polypeptide binding]; other site 1288122000294 active site 1288122000295 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1288122000296 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1288122000297 substrate binding site; other site 1288122000298 tetramer interface; other site 1288122000299 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122000300 Coenzyme A binding pocket [chemical binding]; other site 1288122000301 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1288122000302 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1288122000303 inhibitor-cofactor binding pocket; inhibition site 1288122000304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000305 catalytic residue [active] 1288122000306 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 1288122000307 4-alpha-L-fucosyltransferase glycosyl transferase group 56; Region: Glyco_transf_56; cl07929 1288122000308 putative common antigen polymerase; Provisional; Region: PRK02975 1288122000309 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1288122000310 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1288122000311 putative protoheme IX biogenesis protein; Provisional; Region: PRK10747 1288122000312 HemY protein N-terminus; Region: HemY_N; pfam07219 1288122000313 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1288122000314 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 1288122000315 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1288122000316 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 1288122000317 active site 1288122000318 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1288122000319 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1288122000320 domain interfaces; other site 1288122000321 active site 1288122000322 adenylate cyclase; Provisional; Region: cyaA; PRK09450 1288122000323 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 1288122000324 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 1288122000325 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 1288122000326 putative iron binding site [ion binding]; other site 1288122000327 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1288122000328 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1288122000329 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1288122000330 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1288122000331 hypothetical protein; Provisional; Region: PRK10963 1288122000332 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 1288122000333 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1288122000334 active site 1288122000335 DNA binding site [nucleotide binding] 1288122000336 Int/Topo IB signature motif; other site 1288122000337 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1288122000338 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122000339 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1288122000340 Part of AAA domain; Region: AAA_19; pfam13245 1288122000341 Family description; Region: UvrD_C_2; pfam13538 1288122000342 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1288122000343 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 1288122000344 Cl binding site [ion binding]; other site 1288122000345 oligomer interface [polypeptide binding]; other site 1288122000346 Putative ammonia monooxygenase; Region: AmoA; pfam05145 1288122000347 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1288122000348 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 1288122000349 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1288122000350 EamA-like transporter family; Region: EamA; cl17759 1288122000351 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 1288122000352 dimerization interface [polypeptide binding]; other site 1288122000353 substrate binding site [chemical binding]; other site 1288122000354 active site 1288122000355 calcium binding site [ion binding]; other site 1288122000356 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1288122000357 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122000358 ATP binding site [chemical binding]; other site 1288122000359 putative Mg++ binding site [ion binding]; other site 1288122000360 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122000361 nucleotide binding region [chemical binding]; other site 1288122000362 ATP-binding site [chemical binding]; other site 1288122000363 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1288122000364 HRDC domain; Region: HRDC; pfam00570 1288122000365 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1288122000366 threonine efflux system; Provisional; Region: PRK10229 1288122000367 low affinity gluconate transporter; Provisional; Region: PRK10472 1288122000368 gluconate transporter; Region: gntP; TIGR00791 1288122000369 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 1288122000370 ATP-binding site [chemical binding]; other site 1288122000371 Gluconate-6-phosphate binding site [chemical binding]; other site 1288122000372 Shikimate kinase; Region: SKI; pfam01202 1288122000373 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 1288122000374 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122000375 DNA binding site [nucleotide binding] 1288122000376 domain linker motif; other site 1288122000377 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 1288122000378 putative ligand binding site [chemical binding]; other site 1288122000379 putative dimerization interface [polypeptide binding]; other site 1288122000380 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 1288122000381 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1288122000382 metal-binding site [ion binding] 1288122000383 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1288122000384 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1288122000385 Surface antigen; Region: Bac_surface_Ag; pfam01103 1288122000386 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 1288122000387 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1288122000388 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 1288122000389 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122000390 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 1288122000391 putative dimerization interface [polypeptide binding]; other site 1288122000392 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1288122000393 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 1288122000394 THF binding site; other site 1288122000395 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 1288122000396 substrate binding site [chemical binding]; other site 1288122000397 THF binding site; other site 1288122000398 zinc-binding site [ion binding]; other site 1288122000399 uridine phosphorylase; Provisional; Region: PRK11178 1288122000400 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1288122000401 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1288122000402 Carbon starvation protein CstA; Region: CstA; pfam02554 1288122000403 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1288122000404 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1288122000405 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1288122000406 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1288122000407 RmuC family; Region: RmuC; pfam02646 1288122000408 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1288122000409 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122000410 S-adenosylmethionine binding site [chemical binding]; other site 1288122000411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1288122000412 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1288122000413 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1288122000414 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1288122000415 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1288122000416 sec-independent translocase; Provisional; Region: PRK01770 1288122000417 twin-arginine protein translocation system subunit TatC; Provisional; Region: PRK10921 1288122000418 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1288122000419 active site 1288122000420 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1288122000421 dimer interface [polypeptide binding]; other site 1288122000422 active site 1288122000423 aspartate-rich active site metal binding site; other site 1288122000424 allosteric magnesium binding site [ion binding]; other site 1288122000425 Schiff base residues; other site 1288122000426 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1288122000427 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1288122000428 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1288122000429 heterodimer interface [polypeptide binding]; other site 1288122000430 homodimer interface [polypeptide binding]; other site 1288122000431 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 1288122000432 active site pocket [active] 1288122000433 oxyanion hole [active] 1288122000434 catalytic triad [active] 1288122000435 active site nucleophile [active] 1288122000436 3-octaprenyl-4-hydroxybenzoate decarboxylase; Provisional; Region: PRK10922 1288122000437 FMN reductase; Validated; Region: fre; PRK08051 1288122000438 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 1288122000439 FAD binding pocket [chemical binding]; other site 1288122000440 FAD binding motif [chemical binding]; other site 1288122000441 phosphate binding motif [ion binding]; other site 1288122000442 beta-alpha-beta structure motif; other site 1288122000443 NAD binding pocket [chemical binding]; other site 1288122000444 proline dipeptidase; Provisional; Region: PRK13607 1288122000445 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1288122000446 active site 1288122000447 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1288122000448 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1288122000449 potassium transporter; Provisional; Region: PRK10750 1288122000450 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1288122000451 protoporphyrinogen oxidase; Provisional; Region: hemG; PRK11104 1288122000452 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1288122000453 FAD binding domain; Region: FAD_binding_4; pfam01565 1288122000454 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1288122000455 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1288122000456 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1288122000457 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 1288122000458 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1288122000459 pantothenate kinase; Provisional; Region: PRK05439 1288122000460 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1288122000461 ATP-binding site [chemical binding]; other site 1288122000462 CoA-binding site [chemical binding]; other site 1288122000463 Mg2+-binding site [ion binding]; other site 1288122000464 elongation factor Tu; Reviewed; Region: PRK00049 1288122000465 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1288122000466 G1 box; other site 1288122000467 GEF interaction site [polypeptide binding]; other site 1288122000468 GTP/Mg2+ binding site [chemical binding]; other site 1288122000469 Switch I region; other site 1288122000470 G2 box; other site 1288122000471 G3 box; other site 1288122000472 Switch II region; other site 1288122000473 G4 box; other site 1288122000474 G5 box; other site 1288122000475 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1288122000476 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1288122000477 Antibiotic Binding Site [chemical binding]; other site 1288122000478 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1288122000479 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1288122000480 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1288122000481 putative homodimer interface [polypeptide binding]; other site 1288122000482 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1288122000483 heterodimer interface [polypeptide binding]; other site 1288122000484 homodimer interface [polypeptide binding]; other site 1288122000485 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1288122000486 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 1288122000487 23S rRNA interface [nucleotide binding]; other site 1288122000488 L7/L12 interface [polypeptide binding]; other site 1288122000489 putative thiostrepton binding site; other site 1288122000490 L25 interface [polypeptide binding]; other site 1288122000491 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 1288122000492 mRNA/rRNA interface [nucleotide binding]; other site 1288122000493 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 1288122000494 23S rRNA interface [nucleotide binding]; other site 1288122000495 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1288122000496 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 1288122000497 core dimer interface [polypeptide binding]; other site 1288122000498 peripheral dimer interface [polypeptide binding]; other site 1288122000499 L10 interface [polypeptide binding]; other site 1288122000500 L11 interface [polypeptide binding]; other site 1288122000501 putative EF-Tu interaction site [polypeptide binding]; other site 1288122000502 putative EF-G interaction site [polypeptide binding]; other site 1288122000503 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1288122000504 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 1288122000505 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1288122000506 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1288122000507 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1288122000508 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 1288122000509 RPB3 interaction site [polypeptide binding]; other site 1288122000510 RPB1 interaction site [polypeptide binding]; other site 1288122000511 RPB11 interaction site [polypeptide binding]; other site 1288122000512 RPB10 interaction site [polypeptide binding]; other site 1288122000513 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1288122000514 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 1288122000515 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1288122000516 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1288122000517 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1288122000518 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1288122000519 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1288122000520 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1288122000521 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1288122000522 DNA binding site [nucleotide binding] 1288122000523 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1288122000524 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1288122000525 thiamine phosphate binding site [chemical binding]; other site 1288122000526 active site 1288122000527 pyrophosphate binding site [ion binding]; other site 1288122000528 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1288122000529 ThiC-associated domain; Region: ThiC-associated; pfam13667 1288122000530 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 1288122000531 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1288122000532 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1288122000533 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1288122000534 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1288122000535 putative NADH binding site [chemical binding]; other site 1288122000536 putative active site [active] 1288122000537 nudix motif; other site 1288122000538 putative metal binding site [ion binding]; other site 1288122000539 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 1288122000540 substrate binding site [chemical binding]; other site 1288122000541 active site 1288122000542 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 1288122000543 Active_site [active] 1288122000544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3068 1288122000545 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1288122000546 IHF dimer interface [polypeptide binding]; other site 1288122000547 IHF - DNA interface [nucleotide binding]; other site 1288122000548 Protein of unknown function (DUF1481); Region: DUF1481; pfam07356 1288122000549 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1288122000550 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1288122000551 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1288122000552 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1288122000553 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1288122000554 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 1288122000555 purine monophosphate binding site [chemical binding]; other site 1288122000556 dimer interface [polypeptide binding]; other site 1288122000557 putative catalytic residues [active] 1288122000558 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1288122000559 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1288122000560 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 1288122000561 acetyl-CoA synthetase; Provisional; Region: PRK00174 1288122000562 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1288122000563 active site 1288122000564 CoA binding site [chemical binding]; other site 1288122000565 acyl-activating enzyme (AAE) consensus motif; other site 1288122000566 AMP binding site [chemical binding]; other site 1288122000567 acetate binding site [chemical binding]; other site 1288122000568 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 1288122000569 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1288122000570 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1288122000571 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1288122000572 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1288122000573 dimer interface [polypeptide binding]; other site 1288122000574 ADP-ribose binding site [chemical binding]; other site 1288122000575 active site 1288122000576 nudix motif; other site 1288122000577 metal binding site [ion binding]; metal-binding site 1288122000578 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 1288122000579 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 1288122000580 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1288122000581 active site 1288122000582 metal binding site [ion binding]; metal-binding site 1288122000583 hexamer interface [polypeptide binding]; other site 1288122000584 esterase YqiA; Provisional; Region: PRK11071 1288122000585 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1288122000586 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122000587 ATP binding site [chemical binding]; other site 1288122000588 Mg2+ binding site [ion binding]; other site 1288122000589 G-X-G motif; other site 1288122000590 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 1288122000591 anchoring element; other site 1288122000592 dimer interface [polypeptide binding]; other site 1288122000593 ATP binding site [chemical binding]; other site 1288122000594 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1288122000595 active site 1288122000596 metal binding site [ion binding]; metal-binding site 1288122000597 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1288122000598 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1288122000599 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1288122000600 CAP-like domain; other site 1288122000601 active site 1288122000602 primary dimer interface [polypeptide binding]; other site 1288122000603 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 1288122000604 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1288122000605 putative acyl-acceptor binding pocket; other site 1288122000606 FtsI repressor; Provisional; Region: PRK10883 1288122000607 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1288122000608 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1288122000609 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1288122000610 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1288122000611 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 1288122000612 substrate binding pocket [chemical binding]; other site 1288122000613 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 1288122000614 B12 binding site [chemical binding]; other site 1288122000615 cobalt ligand [ion binding]; other site 1288122000616 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1288122000617 aspartate kinase III; Validated; Region: PRK09084 1288122000618 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 1288122000619 nucleotide binding site [chemical binding]; other site 1288122000620 substrate binding site [chemical binding]; other site 1288122000621 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 1288122000622 lysine allosteric regulatory site; other site 1288122000623 dimer interface [polypeptide binding]; other site 1288122000624 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1288122000625 dimer interface [polypeptide binding]; other site 1288122000626 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1288122000627 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 1288122000628 active site 1288122000629 dimer interface [polypeptide binding]; other site 1288122000630 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 1288122000631 dimer interface [polypeptide binding]; other site 1288122000632 active site 1288122000633 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1288122000634 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1288122000635 phosphate-starvation-inducible protein PsiE; Provisional; Region: PRK02833 1288122000636 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1288122000637 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122000638 dimer interface [polypeptide binding]; other site 1288122000639 conserved gate region; other site 1288122000640 putative PBP binding loops; other site 1288122000641 ABC-ATPase subunit interface; other site 1288122000642 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122000643 dimer interface [polypeptide binding]; other site 1288122000644 conserved gate region; other site 1288122000645 putative PBP binding loops; other site 1288122000646 ABC-ATPase subunit interface; other site 1288122000647 maltose ABC transporter periplasmic protein; Reviewed; Region: malE; PRK09474 1288122000648 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1288122000649 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 1288122000650 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1288122000651 Walker A/P-loop; other site 1288122000652 ATP binding site [chemical binding]; other site 1288122000653 Q-loop/lid; other site 1288122000654 ABC transporter signature motif; other site 1288122000655 Walker B; other site 1288122000656 D-loop; other site 1288122000657 H-loop/switch region; other site 1288122000658 TOBE domain; Region: TOBE_2; pfam08402 1288122000659 The Maltoporin-like channels (LamB porin) form a trimeric structure which facilitate the diffusion of maltodextrins and other sugars across the outer membrane of Gram-negative bacteria. The membrane channel is formed by an 18-strand antiparallel...; Region: Maltoporin-like; cd01346 1288122000660 trimer interface; other site 1288122000661 sugar binding site [chemical binding]; other site 1288122000662 maltose regulon periplasmic protein; Provisional; Region: PRK10564 1288122000663 Chorismate lyase; Region: Chor_lyase; cl01230 1288122000664 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1288122000665 UbiA prenyltransferase family; Region: UbiA; pfam01040 1288122000666 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1288122000667 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122000668 putative substrate translocation pore; other site 1288122000669 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1288122000670 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1288122000671 putative acyl-acceptor binding pocket; other site 1288122000672 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1288122000673 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1288122000674 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 1288122000675 transmembrane helices; other site 1288122000676 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 1288122000677 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; pfam03802 1288122000678 Citrate lyase, alpha subunit [Energy production and conversion]; Region: CitF; COG3051 1288122000679 Coenzyme A transferase; Region: CoA_trans; cl17247 1288122000680 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1288122000681 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1288122000682 citrate lyase subunit gamma; Provisional; Region: PRK13253 1288122000683 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 1288122000684 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1288122000685 active site 1288122000686 nucleotide binding site [chemical binding]; other site 1288122000687 HIGH motif; other site 1288122000688 KMSKS motif; other site 1288122000689 sensor histidine kinase DpiB; Provisional; Region: dpiB; PRK15053 1288122000690 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122000691 putative active site [active] 1288122000692 heme pocket [chemical binding]; other site 1288122000693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122000694 ATP binding site [chemical binding]; other site 1288122000695 Mg2+ binding site [ion binding]; other site 1288122000696 G-X-G motif; other site 1288122000697 two-component response regulator DpiA; Provisional; Region: dpiA; PRK10046 1288122000698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122000699 active site 1288122000700 phosphorylation site [posttranslational modification] 1288122000701 intermolecular recognition site; other site 1288122000702 dimerization interface [polypeptide binding]; other site 1288122000703 Transcriptional regulator; Region: CitT; pfam12431 1288122000704 LexA repressor; Validated; Region: PRK00215 1288122000705 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1288122000706 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1288122000707 Catalytic site [active] 1288122000708 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1288122000709 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1288122000710 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1288122000711 metal binding site 2 [ion binding]; metal-binding site 1288122000712 putative DNA binding helix; other site 1288122000713 metal binding site 1 [ion binding]; metal-binding site 1288122000714 dimer interface [polypeptide binding]; other site 1288122000715 structural Zn2+ binding site [ion binding]; other site 1288122000716 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1288122000717 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1288122000718 FMN binding site [chemical binding]; other site 1288122000719 active site 1288122000720 catalytic residues [active] 1288122000721 substrate binding site [chemical binding]; other site 1288122000722 Phage shock protein G (Phageshock_PspG); Region: Phageshock_PspG; cl11511 1288122000723 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1288122000724 replicative DNA helicase; Provisional; Region: PRK08006 1288122000725 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1288122000726 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 1288122000727 Walker A motif; other site 1288122000728 ATP binding site [chemical binding]; other site 1288122000729 Walker B motif; other site 1288122000730 DNA binding loops [nucleotide binding] 1288122000731 alanine racemase; Reviewed; Region: alr; PRK00053 1288122000732 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1288122000733 active site 1288122000734 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122000735 substrate binding site [chemical binding]; other site 1288122000736 catalytic residues [active] 1288122000737 dimer interface [polypeptide binding]; other site 1288122000738 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1288122000739 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1288122000740 dimer interface [polypeptide binding]; other site 1288122000741 active site 1288122000742 metal binding site [ion binding]; metal-binding site 1288122000743 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 1288122000744 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122000745 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122000746 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122000747 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 1288122000748 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1288122000749 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1288122000750 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1288122000751 E-class dimer interface [polypeptide binding]; other site 1288122000752 P-class dimer interface [polypeptide binding]; other site 1288122000753 active site 1288122000754 Cu2+ binding site [ion binding]; other site 1288122000755 Zn2+ binding site [ion binding]; other site 1288122000756 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1288122000757 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1288122000758 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1288122000759 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1288122000760 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1288122000761 [4Fe-4S] binding site [ion binding]; other site 1288122000762 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122000763 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122000764 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122000765 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1288122000766 molybdopterin cofactor binding site; other site 1288122000767 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 1288122000768 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1288122000769 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1288122000770 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 1288122000771 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1288122000772 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1288122000773 homodimer interface [polypeptide binding]; other site 1288122000774 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000775 catalytic residue [active] 1288122000776 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1288122000777 putrescine transporter; Provisional; Region: potE; PRK10655 1288122000778 nickel responsive regulator; Provisional; Region: PRK02967 1288122000779 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1288122000780 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1288122000781 murein transglycosylase C; Provisional; Region: mltC; PRK11671 1288122000782 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1288122000783 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122000784 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122000785 catalytic residue [active] 1288122000786 oxidative damage protection protein; Provisional; Region: PRK05408 1288122000787 adenine DNA glycosylase; Provisional; Region: PRK10880 1288122000788 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1288122000789 minor groove reading motif; other site 1288122000790 helix-hairpin-helix signature motif; other site 1288122000791 substrate binding pocket [chemical binding]; other site 1288122000792 active site 1288122000793 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1288122000794 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1288122000795 DNA binding and oxoG recognition site [nucleotide binding] 1288122000796 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122000797 S-adenosylmethionine binding site [chemical binding]; other site 1288122000798 hypothetical protein; Provisional; Region: PRK11702 1288122000799 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1288122000800 glutaminase; Provisional; Region: PRK00971 1288122000801 hypothetical protein; Provisional; Region: PRK10626 1288122000802 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 1288122000803 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1288122000804 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1288122000805 peptide binding site [polypeptide binding]; other site 1288122000806 HemN family oxidoreductase; Provisional; Region: PRK05660 1288122000807 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122000808 FeS/SAM binding site; other site 1288122000809 HemN C-terminal domain; Region: HemN_C; pfam06969 1288122000810 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 1288122000811 active site 1288122000812 dimerization interface [polypeptide binding]; other site 1288122000813 hypothetical protein; Validated; Region: PRK05090 1288122000814 YGGT family; Region: YGGT; pfam02325 1288122000815 YGGT family; Region: YGGT; pfam02325 1288122000816 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1288122000817 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122000818 catalytic residue [active] 1288122000819 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1288122000820 hypothetical protein; Validated; Region: PRK00228 1288122000821 glutathione synthetase; Provisional; Region: PRK05246 1288122000822 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1288122000823 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1288122000824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1288122000825 RNA methyltransferase, RsmE family; Region: TIGR00046 1288122000826 DNA-specific endonuclease I; Provisional; Region: PRK15137 1288122000827 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 1288122000828 hypothetical protein; Provisional; Region: PRK04860 1288122000829 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 1288122000830 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 1288122000831 lysine decarboxylase CadA; Provisional; Region: PRK15400 1288122000832 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1288122000833 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1288122000834 homodimer interface [polypeptide binding]; other site 1288122000835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122000836 catalytic residue [active] 1288122000837 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1288122000838 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1288122000839 hypothetical protein; Provisional; Region: PRK11653 1288122000840 DNA-binding transcriptional activator FucR; Provisional; Region: PRK10411 1288122000841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122000842 DNA-binding site [nucleotide binding]; DNA binding site 1288122000843 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122000844 L-fucose mutarotase; Provisional; Region: fucU; PRK15420 1288122000845 L-fuculokinase; Provisional; Region: PRK10331 1288122000846 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1288122000847 nucleotide binding site [chemical binding]; other site 1288122000848 L-fucose isomerase; Provisional; Region: fucI; PRK10991 1288122000849 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1288122000850 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1288122000851 trimer interface [polypeptide binding]; other site 1288122000852 substrate binding site [chemical binding]; other site 1288122000853 Mn binding site [ion binding]; other site 1288122000854 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1288122000855 L-fucose transporter; Provisional; Region: PRK10133; cl17665 1288122000856 DNA polymerase type B, organellar and viral; Region: DNA_pol_B_2; pfam03175 1288122000857 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1288122000858 intersubunit interface [polypeptide binding]; other site 1288122000859 active site 1288122000860 Zn2+ binding site [ion binding]; other site 1288122000861 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1288122000862 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1288122000863 dimer interface [polypeptide binding]; other site 1288122000864 active site 1288122000865 metal binding site [ion binding]; metal-binding site 1288122000866 acid-resistance membrane protein; Provisional; Region: PRK10209 1288122000867 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1288122000868 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 1288122000869 chaperone protein TorD; Validated; Region: torD; PRK04976 1288122000870 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 1288122000871 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1288122000872 molybdopterin cofactor binding site [chemical binding]; other site 1288122000873 substrate binding site [chemical binding]; other site 1288122000874 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1288122000875 molybdopterin cofactor binding site; other site 1288122000876 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 1288122000877 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1288122000878 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 1288122000879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122000880 active site 1288122000881 phosphorylation site [posttranslational modification] 1288122000882 intermolecular recognition site; other site 1288122000883 dimerization interface [polypeptide binding]; other site 1288122000884 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122000885 DNA binding site [nucleotide binding] 1288122000886 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 1288122000887 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 1288122000888 putative ligand binding site [chemical binding]; other site 1288122000889 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 1288122000890 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122000891 dimer interface [polypeptide binding]; other site 1288122000892 phosphorylation site [posttranslational modification] 1288122000893 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122000894 ATP binding site [chemical binding]; other site 1288122000895 Mg2+ binding site [ion binding]; other site 1288122000896 G-X-G motif; other site 1288122000897 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122000898 active site 1288122000899 phosphorylation site [posttranslational modification] 1288122000900 intermolecular recognition site; other site 1288122000901 dimerization interface [polypeptide binding]; other site 1288122000902 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 1288122000903 hypothetical protein; Provisional; Region: PRK10316 1288122000904 YfdX protein; Region: YfdX; pfam10938 1288122000905 putative transcriptional regulator; Provisional; Region: PRK11640 1288122000906 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1288122000907 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1288122000908 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1288122000909 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 1288122000910 DsbD alpha interface [polypeptide binding]; other site 1288122000911 catalytic residues [active] 1288122000912 divalent-cation tolerance protein CutA; Provisional; Region: PRK10645 1288122000913 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1288122000914 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1288122000915 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1288122000916 Aspartase; Region: Aspartase; cd01357 1288122000917 active sites [active] 1288122000918 tetramer interface [polypeptide binding]; other site 1288122000919 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1288122000920 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1288122000921 oligomerisation interface [polypeptide binding]; other site 1288122000922 mobile loop; other site 1288122000923 roof hairpin; other site 1288122000924 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1288122000925 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1288122000926 ring oligomerisation interface [polypeptide binding]; other site 1288122000927 ATP/Mg binding site [chemical binding]; other site 1288122000928 stacking interactions; other site 1288122000929 hinge regions; other site 1288122000930 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000931 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000932 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1288122000933 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000934 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000935 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1288122000936 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000937 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000938 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000939 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000940 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000941 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000942 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1288122000943 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000944 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000945 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000946 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 1288122000947 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000948 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000949 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 1288122000950 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 1288122000951 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 1288122000952 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122000953 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1288122000954 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1288122000955 Walker A/P-loop; other site 1288122000956 ATP binding site [chemical binding]; other site 1288122000957 Q-loop/lid; other site 1288122000958 ABC transporter signature motif; other site 1288122000959 Walker B; other site 1288122000960 D-loop; other site 1288122000961 H-loop/switch region; other site 1288122000962 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1288122000963 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000964 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000965 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000966 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000967 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000968 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000969 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000970 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000971 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000972 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000973 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000974 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000975 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122000976 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1288122000977 AraC family transcriptional regulator; Provisional; Region: PRK15186 1288122000978 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122000979 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122000980 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 1288122000981 Uncharacterized conserved protein [Function unknown]; Region: COG1556 1288122000982 iron-sulfur cluster-binding protein; Region: TIGR00273 1288122000983 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 1288122000984 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122000985 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 1288122000986 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1288122000987 Cysteine-rich domain; Region: CCG; pfam02754 1288122000988 Cysteine-rich domain; Region: CCG; pfam02754 1288122000989 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1288122000990 L-lactate permease; Region: Lactate_perm; cl00701 1288122000991 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 1288122000992 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122000993 FeS/SAM binding site; other site 1288122000994 elongation factor P; Validated; Region: PRK00529 1288122000995 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1288122000996 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1288122000997 RNA binding site [nucleotide binding]; other site 1288122000998 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1288122000999 RNA binding site [nucleotide binding]; other site 1288122001000 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1288122001001 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 1288122001002 Iron-sulfur protein interface; other site 1288122001003 proximal quinone binding site [chemical binding]; other site 1288122001004 C-subunit interface; other site 1288122001005 distal quinone binding site; other site 1288122001006 Quinol:fumarate reductase (QFR) Type D subfamily, 15kD hydrophobic subunit C; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitC; cd00546 1288122001007 D-subunit interface [polypeptide binding]; other site 1288122001008 Iron-sulfur protein interface; other site 1288122001009 proximal quinone binding site [chemical binding]; other site 1288122001010 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 1288122001011 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122001012 catalytic loop [active] 1288122001013 iron binding site [ion binding]; other site 1288122001014 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 1288122001015 L-aspartate oxidase; Provisional; Region: PRK06175 1288122001016 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1288122001017 poxB regulator PoxA; Provisional; Region: PRK09350 1288122001018 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1288122001019 motif 1; other site 1288122001020 dimer interface [polypeptide binding]; other site 1288122001021 active site 1288122001022 motif 2; other site 1288122001023 motif 3; other site 1288122001024 putative mechanosensitive channel protein; Provisional; Region: PRK10929 1288122001025 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1288122001026 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122001027 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1288122001028 GTPase RsgA; Reviewed; Region: PRK12288 1288122001029 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1288122001030 RNA binding site [nucleotide binding]; other site 1288122001031 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1288122001032 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1288122001033 GTP/Mg2+ binding site [chemical binding]; other site 1288122001034 G4 box; other site 1288122001035 G5 box; other site 1288122001036 G1 box; other site 1288122001037 Switch I region; other site 1288122001038 G2 box; other site 1288122001039 G3 box; other site 1288122001040 Switch II region; other site 1288122001041 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1288122001042 catalytic site [active] 1288122001043 putative active site [active] 1288122001044 putative substrate binding site [chemical binding]; other site 1288122001045 dimer interface [polypeptide binding]; other site 1288122001046 epoxyqueuosine reductase; Region: TIGR00276 1288122001047 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1288122001048 putative carbohydrate kinase; Provisional; Region: PRK10565 1288122001049 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1288122001050 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1288122001051 putative substrate binding site [chemical binding]; other site 1288122001052 putative ATP binding site [chemical binding]; other site 1288122001053 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1288122001054 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1288122001055 AMIN domain; Region: AMIN; pfam11741 1288122001056 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1288122001057 active site 1288122001058 metal binding site [ion binding]; metal-binding site 1288122001059 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122001060 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122001061 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1288122001062 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122001063 ATP binding site [chemical binding]; other site 1288122001064 Mg2+ binding site [ion binding]; other site 1288122001065 G-X-G motif; other site 1288122001066 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 1288122001067 ATP binding site [chemical binding]; other site 1288122001068 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 1288122001069 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1288122001070 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1288122001071 bacterial Hfq-like; Region: Hfq; cd01716 1288122001072 hexamer interface [polypeptide binding]; other site 1288122001073 Sm1 motif; other site 1288122001074 RNA binding site [nucleotide binding]; other site 1288122001075 Sm2 motif; other site 1288122001076 GTPase HflX; Provisional; Region: PRK11058 1288122001077 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1288122001078 HflX GTPase family; Region: HflX; cd01878 1288122001079 G1 box; other site 1288122001080 GTP/Mg2+ binding site [chemical binding]; other site 1288122001081 Switch I region; other site 1288122001082 G2 box; other site 1288122001083 G3 box; other site 1288122001084 Switch II region; other site 1288122001085 G4 box; other site 1288122001086 G5 box; other site 1288122001087 FtsH protease regulator HflK; Provisional; Region: PRK10930 1288122001088 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1288122001089 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1288122001090 FtsH protease regulator HflC; Provisional; Region: PRK11029 1288122001091 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1288122001092 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1288122001093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1288122001094 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1288122001095 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 1288122001096 GDP-binding site [chemical binding]; other site 1288122001097 ACT binding site; other site 1288122001098 IMP binding site; other site 1288122001099 transcriptional repressor NsrR; Provisional; Region: PRK11014 1288122001100 Rrf2 family protein; Region: rrf2_super; TIGR00738 1288122001101 exoribonuclease R; Provisional; Region: PRK11642 1288122001102 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1288122001103 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 1288122001104 RNB domain; Region: RNB; pfam00773 1288122001105 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 1288122001106 RNA binding site [nucleotide binding]; other site 1288122001107 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1288122001108 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1288122001109 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1288122001110 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1288122001111 putative biofilm stress and motility protein A; Provisional; Region: PRK14864 1288122001112 esterase; Provisional; Region: PRK10566 1288122001113 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1288122001114 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1288122001115 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1288122001116 dimer interface [polypeptide binding]; other site 1288122001117 ssDNA binding site [nucleotide binding]; other site 1288122001118 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122001119 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1288122001120 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1288122001121 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1288122001122 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1288122001123 Protein of unknown function, DUF488; Region: DUF488; cl01246 1288122001124 Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]; Region: OapA; COG3061 1288122001125 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1288122001126 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 1288122001127 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1288122001128 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122001129 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 1288122001130 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 1288122001131 Hemerythrin-like domain; Region: Hr-like; cd12108 1288122001132 Fe binding site [ion binding]; other site 1288122001133 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1288122001134 active site 1288122001135 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 1288122001136 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1288122001137 Domain of unknown function DUF21; Region: DUF21; pfam01595 1288122001138 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1288122001139 Transporter associated domain; Region: CorC_HlyC; smart01091 1288122001140 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1288122001141 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1288122001142 Surface antigen; Region: Bac_surface_Ag; pfam01103 1288122001143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1288122001144 Family of unknown function (DUF490); Region: DUF490; pfam04357 1288122001145 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1288122001146 putative active site pocket [active] 1288122001147 dimerization interface [polypeptide binding]; other site 1288122001148 putative catalytic residue [active] 1288122001149 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1288122001150 dimer interface [polypeptide binding]; other site 1288122001151 substrate binding site [chemical binding]; other site 1288122001152 metal binding sites [ion binding]; metal-binding site 1288122001153 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1288122001154 AMP binding site [chemical binding]; other site 1288122001155 metal binding site [ion binding]; metal-binding site 1288122001156 active site 1288122001157 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1288122001158 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1288122001159 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122001160 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1288122001161 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1288122001162 arginine repressor; Provisional; Region: PRK05066 1288122001163 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1288122001164 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1288122001165 malate dehydrogenase; Provisional; Region: PRK05086 1288122001166 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1288122001167 NAD binding site [chemical binding]; other site 1288122001168 dimerization interface [polypeptide binding]; other site 1288122001169 Substrate binding site [chemical binding]; other site 1288122001170 Winged helix-turn-helix DNA-binding; Region: HTH_35; pfam13693 1288122001171 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1288122001172 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1288122001173 substrate binding pocket [chemical binding]; other site 1288122001174 chain length determination region; other site 1288122001175 substrate-Mg2+ binding site; other site 1288122001176 catalytic residues [active] 1288122001177 aspartate-rich region 1; other site 1288122001178 active site lid residues [active] 1288122001179 aspartate-rich region 2; other site 1288122001180 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1288122001181 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1288122001182 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1288122001183 EamA-like transporter family; Region: EamA; pfam00892 1288122001184 EamA-like transporter family; Region: EamA; pfam00892 1288122001185 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1288122001186 GTP1/OBG; Region: GTP1_OBG; pfam01018 1288122001187 Obg GTPase; Region: Obg; cd01898 1288122001188 G1 box; other site 1288122001189 GTP/Mg2+ binding site [chemical binding]; other site 1288122001190 Switch I region; other site 1288122001191 G2 box; other site 1288122001192 G3 box; other site 1288122001193 Switch II region; other site 1288122001194 G4 box; other site 1288122001195 G5 box; other site 1288122001196 sensor protein BasS/PmrB; Provisional; Region: PRK10755 1288122001197 HAMP domain; Region: HAMP; pfam00672 1288122001198 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122001199 dimer interface [polypeptide binding]; other site 1288122001200 phosphorylation site [posttranslational modification] 1288122001201 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122001202 ATP binding site [chemical binding]; other site 1288122001203 Mg2+ binding site [ion binding]; other site 1288122001204 G-X-G motif; other site 1288122001205 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1288122001206 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122001207 active site 1288122001208 phosphorylation site [posttranslational modification] 1288122001209 intermolecular recognition site; other site 1288122001210 dimerization interface [polypeptide binding]; other site 1288122001211 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122001212 DNA binding site [nucleotide binding] 1288122001213 D-alanyl-D-alanine carboxypeptidase/endopeptidase; Provisional; Region: PRK11113 1288122001214 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 1288122001215 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1288122001216 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1288122001217 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1288122001218 RNA-binding protein YhbY; Provisional; Region: PRK10343 1288122001219 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1288122001220 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122001221 S-adenosylmethionine binding site [chemical binding]; other site 1288122001222 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 1288122001223 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122001224 Walker A motif; other site 1288122001225 ATP binding site [chemical binding]; other site 1288122001226 Walker B motif; other site 1288122001227 arginine finger; other site 1288122001228 Peptidase family M41; Region: Peptidase_M41; pfam01434 1288122001229 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1288122001230 dihydropteroate synthase; Region: DHPS; TIGR01496 1288122001231 substrate binding pocket [chemical binding]; other site 1288122001232 dimer interface [polypeptide binding]; other site 1288122001233 inhibitor binding site; inhibition site 1288122001234 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1288122001235 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1288122001236 active site 1288122001237 substrate binding site [chemical binding]; other site 1288122001238 metal binding site [ion binding]; metal-binding site 1288122001239 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1288122001240 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1288122001241 Sm and related proteins; Region: Sm_like; cl00259 1288122001242 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1288122001243 putative oligomer interface [polypeptide binding]; other site 1288122001244 putative RNA binding site [nucleotide binding]; other site 1288122001245 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1288122001246 NusA N-terminal domain; Region: NusA_N; pfam08529 1288122001247 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1288122001248 RNA binding site [nucleotide binding]; other site 1288122001249 homodimer interface [polypeptide binding]; other site 1288122001250 NusA-like KH domain; Region: KH_5; pfam13184 1288122001251 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 1288122001252 G-X-X-G motif; other site 1288122001253 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1288122001254 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1288122001255 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1288122001256 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1288122001257 translation initiation factor IF-2; Validated; Region: infB; PRK05306 1288122001258 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1288122001259 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1288122001260 G1 box; other site 1288122001261 putative GEF interaction site [polypeptide binding]; other site 1288122001262 GTP/Mg2+ binding site [chemical binding]; other site 1288122001263 Switch I region; other site 1288122001264 G2 box; other site 1288122001265 G3 box; other site 1288122001266 Switch II region; other site 1288122001267 G4 box; other site 1288122001268 G5 box; other site 1288122001269 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 1288122001270 Translation-initiation factor 2; Region: IF-2; pfam11987 1288122001271 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 1288122001272 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1288122001273 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1288122001274 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1288122001275 RNA binding site [nucleotide binding]; other site 1288122001276 active site 1288122001277 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1288122001278 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 1288122001279 16S/18S rRNA binding site [nucleotide binding]; other site 1288122001280 S13e-L30e interaction site [polypeptide binding]; other site 1288122001281 25S rRNA binding site [nucleotide binding]; other site 1288122001282 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1288122001283 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1288122001284 RNase E interface [polypeptide binding]; other site 1288122001285 trimer interface [polypeptide binding]; other site 1288122001286 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1288122001287 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1288122001288 RNase E interface [polypeptide binding]; other site 1288122001289 trimer interface [polypeptide binding]; other site 1288122001290 active site 1288122001291 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1288122001292 putative nucleic acid binding region [nucleotide binding]; other site 1288122001293 G-X-X-G motif; other site 1288122001294 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1288122001295 RNA binding site [nucleotide binding]; other site 1288122001296 domain interface; other site 1288122001297 lipoprotein NlpI; Provisional; Region: PRK11189 1288122001298 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122001299 binding surface 1288122001300 TPR motif; other site 1288122001301 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1288122001302 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1288122001303 ATP binding site [chemical binding]; other site 1288122001304 Mg++ binding site [ion binding]; other site 1288122001305 motif III; other site 1288122001306 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122001307 nucleotide binding region [chemical binding]; other site 1288122001308 ATP-binding site [chemical binding]; other site 1288122001309 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1288122001310 putative RNA binding site [nucleotide binding]; other site 1288122001311 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1288122001312 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1288122001313 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1288122001314 putative protease; Provisional; Region: PRK15447 1288122001315 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1288122001316 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1288122001317 Peptidase family U32; Region: Peptidase_U32; pfam01136 1288122001318 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1288122001319 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1288122001320 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122001321 Coenzyme A binding pocket [chemical binding]; other site 1288122001322 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1288122001323 Na binding site [ion binding]; other site 1288122001324 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1288122001325 GIY-YIG motif/motif A; other site 1288122001326 putative active site [active] 1288122001327 putative metal binding site [ion binding]; other site 1288122001328 hypothetical protein; Provisional; Region: PRK03467 1288122001329 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 1288122001330 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1288122001331 NAD binding site [chemical binding]; other site 1288122001332 active site 1288122001333 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 1288122001334 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 1288122001335 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1288122001336 ATP cone domain; Region: ATP-cone; pfam03477 1288122001337 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1288122001338 effector binding site; other site 1288122001339 active site 1288122001340 Zn binding site [ion binding]; other site 1288122001341 glycine loop; other site 1288122001342 YqjK-like protein; Region: YqjK; pfam13997 1288122001343 Predicted membrane protein [Function unknown]; Region: COG5393 1288122001344 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 1288122001345 EnvZ/OmpR regulon moderator; Provisional; Region: PRK10629 1288122001346 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1288122001347 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1288122001348 CrcB-like protein; Region: CRCB; cl09114 1288122001349 DNA-binding transcriptional repressor ExuR; Provisional; Region: PRK11523 1288122001350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122001351 DNA-binding site [nucleotide binding]; DNA binding site 1288122001352 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1288122001353 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122001354 D-galactonate transporter; Region: 2A0114; TIGR00893 1288122001355 putative substrate translocation pore; other site 1288122001356 Glucuronate isomerase; Region: UxaC; pfam02614 1288122001357 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1288122001358 altronate oxidoreductase; Provisional; Region: PRK03643 1288122001359 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1288122001360 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1288122001361 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1288122001362 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1288122001363 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1288122001364 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1288122001365 serine/threonine transporter SstT; Provisional; Region: PRK13628 1288122001366 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1288122001367 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 1288122001368 EamA-like transporter family; Region: EamA; pfam00892 1288122001369 EamA-like transporter family; Region: EamA; pfam00892 1288122001370 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1288122001371 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1288122001372 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1288122001373 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 1288122001374 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122001375 S-adenosylmethionine binding site [chemical binding]; other site 1288122001376 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 1288122001377 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122001378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122001379 homodimer interface [polypeptide binding]; other site 1288122001380 catalytic residue [active] 1288122001381 sensor protein QseC; Provisional; Region: PRK10337 1288122001382 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1288122001383 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122001384 dimer interface [polypeptide binding]; other site 1288122001385 phosphorylation site [posttranslational modification] 1288122001386 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122001387 ATP binding site [chemical binding]; other site 1288122001388 Mg2+ binding site [ion binding]; other site 1288122001389 G-X-G motif; other site 1288122001390 DNA-binding transcriptional regulator QseB; Provisional; Region: PRK10336 1288122001391 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122001392 active site 1288122001393 phosphorylation site [posttranslational modification] 1288122001394 intermolecular recognition site; other site 1288122001395 dimerization interface [polypeptide binding]; other site 1288122001396 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122001397 DNA binding site [nucleotide binding] 1288122001398 Periplasmic protein with OB-fold [Function unknown]; Region: COG3111 1288122001399 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1288122001400 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1288122001401 dimer interface [polypeptide binding]; other site 1288122001402 active site 1288122001403 glycine loop; other site 1288122001404 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1288122001405 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122001406 FeS/SAM binding site; other site 1288122001407 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1288122001408 active site 1288122001409 intersubunit interactions; other site 1288122001410 catalytic residue [active] 1288122001411 integrase; Provisional; Region: int; PHA02601 1288122001412 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 1288122001413 dimer interface [polypeptide binding]; other site 1288122001414 active site 1288122001415 catalytic residues [active] 1288122001416 Int/Topo IB signature motif; other site 1288122001417 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 1288122001418 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 1288122001419 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 1288122001420 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1288122001421 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1288122001422 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1288122001423 Phage-related protein [Function unknown]; Region: COG4695; cl01923 1288122001424 Phage portal protein; Region: Phage_portal; pfam04860 1288122001425 terminase ATPase subunit; Provisional; Region: P; PHA02535 1288122001426 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1288122001427 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 1288122001428 Phage major capsid protein, P2 family; Region: Phage_cap_P2; cl04947 1288122001429 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1288122001430 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1288122001431 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1288122001432 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1288122001433 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 1288122001434 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 1288122001435 Phage holin family 2; Region: Phage_holin_2; pfam04550 1288122001436 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 1288122001437 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 1288122001438 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1288122001439 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 1288122001440 Baseplate J-like protein; Region: Baseplate_J; cl01294 1288122001441 Baseplate J-like protein; Region: Baseplate_J; pfam04865 1288122001442 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1288122001443 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1288122001444 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1288122001445 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 1288122001446 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1288122001447 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 1288122001448 active site 1288122001449 SUMO-1 interface [polypeptide binding]; other site 1288122001450 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1288122001451 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1288122001452 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1288122001453 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1288122001454 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1288122001455 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1288122001456 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1288122001457 DNA binding residues [nucleotide binding] 1288122001458 DNA primase; Validated; Region: dnaG; PRK05667 1288122001459 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1288122001460 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1288122001461 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 1288122001462 active site 1288122001463 metal binding site [ion binding]; metal-binding site 1288122001464 interdomain interaction site; other site 1288122001465 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1288122001466 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1288122001467 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1288122001468 UGMP family protein; Validated; Region: PRK09604 1288122001469 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1288122001470 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1288122001471 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1288122001472 homooctamer interface [polypeptide binding]; other site 1288122001473 active site 1288122001474 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 1288122001475 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1288122001476 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1288122001477 active site 1288122001478 NTP binding site [chemical binding]; other site 1288122001479 metal binding triad [ion binding]; metal-binding site 1288122001480 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1288122001481 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1288122001482 Zn2+ binding site [ion binding]; other site 1288122001483 Mg2+ binding site [ion binding]; other site 1288122001484 SH3 domain-containing protein; Provisional; Region: PRK10884 1288122001485 Bacterial SH3 domain homologues; Region: SH3b; smart00287 1288122001486 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1288122001487 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1288122001488 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1288122001489 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1288122001490 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1288122001491 putative active site [active] 1288122001492 putative metal binding residues [ion binding]; other site 1288122001493 signature motif; other site 1288122001494 putative triphosphate binding site [ion binding]; other site 1288122001495 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1288122001496 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1288122001497 metal binding triad; other site 1288122001498 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1288122001499 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1288122001500 metal binding triad; other site 1288122001501 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1288122001502 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1288122001503 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1288122001504 putative acyl-acceptor binding pocket; other site 1288122001505 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 1288122001506 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 1288122001507 putative ribose interaction site [chemical binding]; other site 1288122001508 putative ADP binding site [chemical binding]; other site 1288122001509 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 1288122001510 active site 1288122001511 nucleotide binding site [chemical binding]; other site 1288122001512 HIGH motif; other site 1288122001513 KMSKS motif; other site 1288122001514 putative transporter; Provisional; Region: PRK11021 1288122001515 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1288122001516 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 1288122001517 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 1288122001518 zinc transporter ZupT; Provisional; Region: PRK04201 1288122001519 ZIP Zinc transporter; Region: Zip; pfam02535 1288122001520 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1288122001521 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1288122001522 putative active site [active] 1288122001523 metal binding site [ion binding]; metal-binding site 1288122001524 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 1288122001525 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1288122001526 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122001527 S-adenosylmethionine binding site [chemical binding]; other site 1288122001528 DNA polymerase III subunit psi; Validated; Region: PRK06856 1288122001529 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1288122001530 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1288122001531 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1288122001532 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1288122001533 G1 box; other site 1288122001534 putative GEF interaction site [polypeptide binding]; other site 1288122001535 GTP/Mg2+ binding site [chemical binding]; other site 1288122001536 Switch I region; other site 1288122001537 G2 box; other site 1288122001538 G3 box; other site 1288122001539 Switch II region; other site 1288122001540 G4 box; other site 1288122001541 G5 box; other site 1288122001542 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1288122001543 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1288122001544 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1288122001545 active site 1288122001546 nucleophile elbow; other site 1288122001547 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1288122001548 active site 1288122001549 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1288122001550 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1288122001551 Nucleoside recognition; Region: Gate; pfam07670 1288122001552 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1288122001553 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 1288122001554 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1288122001555 hypothetical protein; Provisional; Region: PRK10977 1288122001556 Pyruvate formate lyase; Region: PFL; pfam02901 1288122001557 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1288122001558 intersubunit interface [polypeptide binding]; other site 1288122001559 active site 1288122001560 catalytic residue [active] 1288122001561 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 1288122001562 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1288122001563 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1288122001564 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1288122001565 phosphopentomutase; Provisional; Region: PRK05362 1288122001566 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1288122001567 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1288122001568 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1288122001569 Cytochrome b562; Region: Cytochrom_B562; pfam07361 1288122001570 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 1288122001571 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1288122001572 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1288122001573 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1288122001574 dimerization domain swap beta strand [polypeptide binding]; other site 1288122001575 regulatory protein interface [polypeptide binding]; other site 1288122001576 active site 1288122001577 regulatory phosphorylation site [posttranslational modification]; other site 1288122001578 P-loop ATPase protein family; Region: ATP_bind_2; pfam03668 1288122001579 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1288122001580 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1288122001581 active site 1288122001582 phosphorylation site [posttranslational modification] 1288122001583 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1288122001584 30S subunit binding site; other site 1288122001585 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1288122001586 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1288122001587 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1288122001588 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1288122001589 lipopolysaccharide ABC transporter ATP-binding protein; Provisional; Region: PRK10895 1288122001590 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1288122001591 Walker A/P-loop; other site 1288122001592 ATP binding site [chemical binding]; other site 1288122001593 Q-loop/lid; other site 1288122001594 ABC transporter signature motif; other site 1288122001595 Walker B; other site 1288122001596 D-loop; other site 1288122001597 H-loop/switch region; other site 1288122001598 lipopolysaccharide transport periplasmic protein LptA; Provisional; Region: PRK10894 1288122001599 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1288122001600 lipopolysaccharide exporter periplasmic protein; Provisional; Region: PRK10893 1288122001601 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1288122001602 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 1288122001603 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 1288122001604 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1288122001605 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1288122001606 putative active site [active] 1288122001607 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1288122001608 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 1288122001609 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1288122001610 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1288122001611 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1288122001612 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1288122001613 Walker A/P-loop; other site 1288122001614 ATP binding site [chemical binding]; other site 1288122001615 Q-loop/lid; other site 1288122001616 ABC transporter signature motif; other site 1288122001617 Walker B; other site 1288122001618 D-loop; other site 1288122001619 H-loop/switch region; other site 1288122001620 conserved hypothetical integral membrane protein; Region: TIGR00056 1288122001621 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1288122001622 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1288122001623 mce related protein; Region: MCE; pfam02470 1288122001624 ABC transporter periplasmic binding protein MlaC; Provisional; Region: PRK15117 1288122001625 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1288122001626 anti sigma factor interaction site; other site 1288122001627 regulatory phosphorylation site [posttranslational modification]; other site 1288122001628 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1288122001629 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1288122001630 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1288122001631 hinge; other site 1288122001632 active site 1288122001633 serine endoprotease; Provisional; Region: PRK10898 1288122001634 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1288122001635 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1288122001636 serine endoprotease; Provisional; Region: PRK10139 1288122001637 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1288122001638 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1288122001639 protein binding site [polypeptide binding]; other site 1288122001640 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1288122001641 protein binding site [polypeptide binding]; other site 1288122001642 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1288122001643 hypothetical protein; Provisional; Region: PRK11677 1288122001644 Predicted ATPase [General function prediction only]; Region: COG1485 1288122001645 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 1288122001646 23S rRNA interface [nucleotide binding]; other site 1288122001647 L3 interface [polypeptide binding]; other site 1288122001648 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1288122001649 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1288122001650 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 1288122001651 C-terminal domain interface [polypeptide binding]; other site 1288122001652 putative GSH binding site (G-site) [chemical binding]; other site 1288122001653 dimer interface [polypeptide binding]; other site 1288122001654 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1288122001655 dimer interface [polypeptide binding]; other site 1288122001656 N-terminal domain interface [polypeptide binding]; other site 1288122001657 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1288122001658 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1288122001659 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1288122001660 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122001661 nucleotide binding site [chemical binding]; other site 1288122001662 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1288122001663 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1288122001664 putative active site cavity [active] 1288122001665 putative disulfide oxidoreductase; Provisional; Region: PRK04307 1288122001666 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1288122001667 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1288122001668 catalytic residues [active] 1288122001669 hinge region; other site 1288122001670 alpha helical domain; other site 1288122001671 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 1288122001672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122001673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122001674 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 1288122001675 substrate binding pocket [chemical binding]; other site 1288122001676 dimerization interface [polypeptide binding]; other site 1288122001677 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1288122001678 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1288122001679 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1288122001680 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122001681 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122001682 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1288122001683 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1288122001684 active site 1288122001685 dimer interface [polypeptide binding]; other site 1288122001686 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1288122001687 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 1288122001688 active site 1288122001689 FMN binding site [chemical binding]; other site 1288122001690 substrate binding site [chemical binding]; other site 1288122001691 3Fe-4S cluster binding site [ion binding]; other site 1288122001692 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1288122001693 domain interface; other site 1288122001694 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1288122001695 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122001696 FeS/SAM binding site; other site 1288122001697 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 1288122001698 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122001699 putative active site [active] 1288122001700 heme pocket [chemical binding]; other site 1288122001701 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122001702 dimer interface [polypeptide binding]; other site 1288122001703 phosphorylation site [posttranslational modification] 1288122001704 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122001705 ATP binding site [chemical binding]; other site 1288122001706 Mg2+ binding site [ion binding]; other site 1288122001707 G-X-G motif; other site 1288122001708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122001709 active site 1288122001710 phosphorylation site [posttranslational modification] 1288122001711 intermolecular recognition site; other site 1288122001712 dimerization interface [polypeptide binding]; other site 1288122001713 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1288122001714 putative binding surface; other site 1288122001715 active site 1288122001716 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1288122001717 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1288122001718 conserved cys residue [active] 1288122001719 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1288122001720 Transglycosylase; Region: Transgly; cl17702 1288122001721 outer membrane lipoprotein; Provisional; Region: PRK11023 1288122001722 BON domain; Region: BON; pfam04972 1288122001723 BON domain; Region: BON; pfam04972 1288122001724 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1288122001725 dimer interface [polypeptide binding]; other site 1288122001726 active site 1288122001727 hypothetical protein; Reviewed; Region: PRK12497 1288122001728 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1288122001729 putative ligand binding site [chemical binding]; other site 1288122001730 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 1288122001731 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1288122001732 putative SAM binding site [chemical binding]; other site 1288122001733 putative homodimer interface [polypeptide binding]; other site 1288122001734 hypothetical protein; Provisional; Region: PRK11246 1288122001735 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 1288122001736 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1288122001737 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122001738 motif II; other site 1288122001739 DNA repair protein RadA; Provisional; Region: PRK11823 1288122001740 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1288122001741 Walker A motif/ATP binding site; other site 1288122001742 ATP binding site [chemical binding]; other site 1288122001743 Walker B motif; other site 1288122001744 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1288122001745 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1288122001746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122001747 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122001748 ABC transporter; Region: ABC_tran_2; pfam12848 1288122001749 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122001750 lytic murein transglycosylase; Provisional; Region: PRK11619 1288122001751 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122001752 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122001753 catalytic residue [active] 1288122001754 Trp operon repressor; Provisional; Region: PRK01381 1288122001755 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 1288122001756 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1288122001757 catalytic core [active] 1288122001758 right oriC-binding transcriptional activator; Provisional; Region: PRK15121 1288122001759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122001760 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 1288122001761 hypothetical protein; Provisional; Region: PRK10756 1288122001762 CreA protein; Region: CreA; pfam05981 1288122001763 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1288122001764 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1288122001765 dimer interface [polypeptide binding]; other site 1288122001766 motif 1; other site 1288122001767 active site 1288122001768 motif 2; other site 1288122001769 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1288122001770 putative deacylase active site [active] 1288122001771 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1288122001772 active site 1288122001773 motif 3; other site 1288122001774 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1288122001775 anticodon binding site; other site 1288122001776 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1288122001777 homodimer interaction site [polypeptide binding]; other site 1288122001778 cofactor binding site; other site 1288122001779 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 1288122001780 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 1288122001781 lipoprotein, YaeC family; Region: TIGR00363 1288122001782 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122001783 dimer interface [polypeptide binding]; other site 1288122001784 conserved gate region; other site 1288122001785 ABC-ATPase subunit interface; other site 1288122001786 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1288122001787 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1288122001788 Walker A/P-loop; other site 1288122001789 ATP binding site [chemical binding]; other site 1288122001790 Q-loop/lid; other site 1288122001791 ABC transporter signature motif; other site 1288122001792 Walker B; other site 1288122001793 D-loop; other site 1288122001794 H-loop/switch region; other site 1288122001795 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1288122001796 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 1288122001797 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122001798 active site 1288122001799 motif I; other site 1288122001800 motif II; other site 1288122001801 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1288122001802 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122001803 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 1288122001804 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 1288122001805 domain interface [polypeptide binding]; other site 1288122001806 putative active site [active] 1288122001807 catalytic site [active] 1288122001808 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 1288122001809 domain interface [polypeptide binding]; other site 1288122001810 putative active site [active] 1288122001811 catalytic site [active] 1288122001812 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 1288122001813 CoA binding domain; Region: CoA_binding_2; pfam13380 1288122001814 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 1288122001815 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 1288122001816 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1288122001817 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1288122001818 Uncharacterized conserved protein [Function unknown]; Region: COG3148 1288122001819 thioredoxin 2; Provisional; Region: PRK10996 1288122001820 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 1288122001821 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1288122001822 catalytic residues [active] 1288122001823 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1288122001824 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1288122001825 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1288122001826 two-component response regulator; Provisional; Region: PRK11173 1288122001827 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122001828 active site 1288122001829 phosphorylation site [posttranslational modification] 1288122001830 intermolecular recognition site; other site 1288122001831 dimerization interface [polypeptide binding]; other site 1288122001832 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122001833 DNA binding site [nucleotide binding] 1288122001834 putative RNA methyltransferase; Provisional; Region: PRK10433 1288122001835 RNA methyltransferase, TrmH family, group 1; Region: rRNA_methyl_1; TIGR00050 1288122001836 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 1288122001837 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1288122001838 putative catalytic residues [active] 1288122001839 putative nucleotide binding site [chemical binding]; other site 1288122001840 putative aspartate binding site [chemical binding]; other site 1288122001841 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 1288122001842 dimer interface [polypeptide binding]; other site 1288122001843 putative threonine allosteric regulatory site; other site 1288122001844 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 1288122001845 putative threonine allosteric regulatory site; other site 1288122001846 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1288122001847 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1288122001848 homoserine kinase; Provisional; Region: PRK01212 1288122001849 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1288122001850 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1288122001851 threonine synthase; Validated; Region: PRK09225 1288122001852 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1288122001853 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122001854 catalytic residue [active] 1288122001855 hypothetical protein; Validated; Region: PRK02101 1288122001856 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1288122001857 amino acid carrier protein; Region: agcS; TIGR00835 1288122001858 transaldolase-like protein; Provisional; Region: PTZ00411 1288122001859 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 1288122001860 active site 1288122001861 dimer interface [polypeptide binding]; other site 1288122001862 catalytic residue [active] 1288122001863 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 1288122001864 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1288122001865 tetramerization interface [polypeptide binding]; other site 1288122001866 NAD(P) binding site [chemical binding]; other site 1288122001867 catalytic residues [active] 1288122001868 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1288122001869 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122001870 active site 1288122001871 motif I; other site 1288122001872 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 1288122001873 MPT binding site; other site 1288122001874 trimer interface [polypeptide binding]; other site 1288122001875 metabolite-proton symporter; Region: 2A0106; TIGR00883 1288122001876 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122001877 putative substrate translocation pore; other site 1288122001878 hypothetical protein; Provisional; Region: PRK10659 1288122001879 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1288122001880 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1288122001881 nucleotide binding site [chemical binding]; other site 1288122001882 chaperone protein DnaJ; Provisional; Region: PRK10767 1288122001883 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1288122001884 HSP70 interaction site [polypeptide binding]; other site 1288122001885 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1288122001886 substrate binding site [polypeptide binding]; other site 1288122001887 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1288122001888 Zn binding sites [ion binding]; other site 1288122001889 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1288122001890 dimer interface [polypeptide binding]; other site 1288122001891 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 1288122001892 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 1288122001893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122001894 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 1288122001895 putative dimerization interface [polypeptide binding]; other site 1288122001896 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1288122001897 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1288122001898 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1288122001899 active site 1288122001900 Riboflavin kinase; Region: Flavokinase; smart00904 1288122001901 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1288122001902 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1288122001903 active site 1288122001904 HIGH motif; other site 1288122001905 nucleotide binding site [chemical binding]; other site 1288122001906 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1288122001907 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1288122001908 active site 1288122001909 KMSKS motif; other site 1288122001910 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1288122001911 tRNA binding surface [nucleotide binding]; other site 1288122001912 anticodon binding site; other site 1288122001913 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1288122001914 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1288122001915 lipoprotein signal peptidase; Provisional; Region: PRK14787 1288122001916 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1288122001917 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122001918 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1288122001919 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1288122001920 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1288122001921 substrate binding site [chemical binding]; other site 1288122001922 xanthine dehydrogenase subunit XdhC; Provisional; Region: PRK09908 1288122001923 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122001924 catalytic loop [active] 1288122001925 iron binding site [ion binding]; other site 1288122001926 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1288122001927 xanthine dehydrogenase subunit XdhB; Provisional; Region: PRK09971 1288122001928 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1288122001929 xanthine dehydrogenase subunit XdhA; Provisional; Region: PRK09970 1288122001930 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1288122001931 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1288122001932 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1288122001933 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1288122001934 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1288122001935 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1288122001936 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1288122001937 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1288122001938 catalytic site [active] 1288122001939 subunit interface [polypeptide binding]; other site 1288122001940 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1288122001941 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1288122001942 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1288122001943 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1288122001944 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1288122001945 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1288122001946 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1288122001947 IMP binding site; other site 1288122001948 dimer interface [polypeptide binding]; other site 1288122001949 interdomain contacts; other site 1288122001950 partial ornithine binding site; other site 1288122001951 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1288122001952 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 1288122001953 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 1288122001954 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1288122001955 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1288122001956 folate binding site [chemical binding]; other site 1288122001957 NADP+ binding site [chemical binding]; other site 1288122001958 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1288122001959 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1288122001960 active site 1288122001961 metal binding site [ion binding]; metal-binding site 1288122001962 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1288122001963 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1288122001964 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1288122001965 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1288122001966 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1288122001967 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1288122001968 SurA N-terminal domain; Region: SurA_N; pfam09312 1288122001969 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1288122001970 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1288122001971 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1288122001972 OstA-like protein; Region: OstA; pfam03968 1288122001973 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1288122001974 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1288122001975 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1288122001976 putative metal binding site [ion binding]; other site 1288122001977 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1288122001978 HSP70 interaction site [polypeptide binding]; other site 1288122001979 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1288122001980 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1288122001981 active site 1288122001982 ATP-dependent helicase HepA; Validated; Region: PRK04914 1288122001983 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122001984 ATP binding site [chemical binding]; other site 1288122001985 putative Mg++ binding site [ion binding]; other site 1288122001986 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122001987 nucleotide binding region [chemical binding]; other site 1288122001988 ATP-binding site [chemical binding]; other site 1288122001989 DNA polymerase II; Reviewed; Region: PRK05762 1288122001990 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 1288122001991 active site 1288122001992 catalytic site [active] 1288122001993 substrate binding site [chemical binding]; other site 1288122001994 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 1288122001995 active site 1288122001996 metal-binding site 1288122001997 thiamine transporter ATP-binding subunit; Provisional; Region: thiQ; PRK10771 1288122001998 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122001999 Walker A/P-loop; other site 1288122002000 ATP binding site [chemical binding]; other site 1288122002001 Q-loop/lid; other site 1288122002002 ABC transporter signature motif; other site 1288122002003 Walker B; other site 1288122002004 D-loop; other site 1288122002005 H-loop/switch region; other site 1288122002006 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1288122002007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122002008 dimer interface [polypeptide binding]; other site 1288122002009 conserved gate region; other site 1288122002010 putative PBP binding loops; other site 1288122002011 ABC-ATPase subunit interface; other site 1288122002012 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1288122002013 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1288122002014 transcriptional regulator SgrR; Provisional; Region: PRK13626 1288122002015 Sugar transport-related sRNA regulator N-term; Region: SgrR_N; pfam12793 1288122002016 The C-terminal solute-binding domain of DNA-binding transcriptional regulator SgrR is related to the ABC-type oligopeptide-binding proteins and contains the type 2 periplasmic-binding fold; Region: PBP2_SgrR_like; cd08507 1288122002017 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1288122002018 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1288122002019 transmembrane helices; other site 1288122002020 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1288122002021 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1288122002022 Walker A/P-loop; other site 1288122002023 ATP binding site [chemical binding]; other site 1288122002024 Q-loop/lid; other site 1288122002025 ABC transporter signature motif; other site 1288122002026 Walker B; other site 1288122002027 D-loop; other site 1288122002028 H-loop/switch region; other site 1288122002029 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1288122002030 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1288122002031 Walker A/P-loop; other site 1288122002032 ATP binding site [chemical binding]; other site 1288122002033 Q-loop/lid; other site 1288122002034 ABC transporter signature motif; other site 1288122002035 Walker B; other site 1288122002036 D-loop; other site 1288122002037 H-loop/switch region; other site 1288122002038 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1288122002039 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1288122002040 siderophore binding site; other site 1288122002041 potential frameshift: common BLAST hit: gi|387866709|ref|YP_005698178.1| ferrichrome transport system permease FhuB 1288122002042 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1288122002043 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1288122002044 N-terminal plug; other site 1288122002045 ligand-binding site [chemical binding]; other site 1288122002046 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1288122002047 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1288122002048 substrate binding site [chemical binding]; other site 1288122002049 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1288122002050 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1288122002051 substrate binding site [chemical binding]; other site 1288122002052 ligand binding site [chemical binding]; other site 1288122002053 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1288122002054 tartrate dehydrogenase; Provisional; Region: PRK08194 1288122002055 2-isopropylmalate synthase; Validated; Region: PRK00915 1288122002056 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1288122002057 active site 1288122002058 catalytic residues [active] 1288122002059 metal binding site [ion binding]; metal-binding site 1288122002060 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 1288122002061 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 1288122002062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122002063 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 1288122002064 putative substrate binding pocket [chemical binding]; other site 1288122002065 putative dimerization interface [polypeptide binding]; other site 1288122002066 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 1288122002067 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1288122002068 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1288122002069 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 1288122002070 acyl-activating enzyme (AAE) consensus motif; other site 1288122002071 acyl-activating enzyme (AAE) consensus motif; other site 1288122002072 putative AMP binding site [chemical binding]; other site 1288122002073 putative active site [active] 1288122002074 putative CoA binding site [chemical binding]; other site 1288122002075 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK07979 1288122002076 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1288122002077 PYR/PP interface [polypeptide binding]; other site 1288122002078 dimer interface [polypeptide binding]; other site 1288122002079 TPP binding site [chemical binding]; other site 1288122002080 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1288122002081 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 1288122002082 TPP-binding site [chemical binding]; other site 1288122002083 dimer interface [polypeptide binding]; other site 1288122002084 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1288122002085 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1288122002086 putative valine binding site [chemical binding]; other site 1288122002087 dimer interface [polypeptide binding]; other site 1288122002088 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1288122002089 DNA-binding transcriptional regulator FruR; Provisional; Region: PRK11303 1288122002090 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122002091 DNA binding site [nucleotide binding] 1288122002092 domain linker motif; other site 1288122002093 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1288122002094 dimerization interface [polypeptide binding]; other site 1288122002095 ligand binding site [chemical binding]; other site 1288122002096 cell division protein MraZ; Reviewed; Region: PRK00326 1288122002097 MraZ protein; Region: MraZ; pfam02381 1288122002098 MraZ protein; Region: MraZ; pfam02381 1288122002099 MraW methylase family; Region: Methyltransf_5; pfam01795 1288122002100 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1288122002101 cell division protein FtsL; Provisional; Region: PRK10772 1288122002102 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1288122002103 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1288122002104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1288122002105 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1288122002106 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1288122002107 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122002108 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1288122002109 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1288122002110 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1288122002111 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122002112 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1288122002113 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1288122002114 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1288122002115 Mg++ binding site [ion binding]; other site 1288122002116 putative catalytic motif [active] 1288122002117 putative substrate binding site [chemical binding]; other site 1288122002118 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03806 1288122002119 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122002120 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1288122002121 cell division protein FtsW; Provisional; Region: PRK10774 1288122002122 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1288122002123 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1288122002124 active site 1288122002125 homodimer interface [polypeptide binding]; other site 1288122002126 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1288122002127 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1288122002128 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122002129 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1288122002130 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1288122002131 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1288122002132 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1288122002133 cell division protein FtsQ; Provisional; Region: PRK10775 1288122002134 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1288122002135 Cell division protein FtsQ; Region: FtsQ; pfam03799 1288122002136 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1288122002137 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122002138 Cell division protein FtsA; Region: FtsA; pfam14450 1288122002139 cell division protein FtsZ; Validated; Region: PRK09330 1288122002140 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 1288122002141 nucleotide binding site [chemical binding]; other site 1288122002142 SulA interaction site; other site 1288122002143 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1288122002144 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1288122002145 Protein of unknown function (DUF721); Region: DUF721; cl02324 1288122002146 SecA regulator SecM; Provisional; Region: PRK02943 1288122002147 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1288122002148 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1288122002149 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 1288122002150 nucleotide binding region [chemical binding]; other site 1288122002151 ATP-binding site [chemical binding]; other site 1288122002152 SEC-C motif; Region: SEC-C; pfam02810 1288122002153 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1288122002154 active site 1288122002155 8-oxo-dGMP binding site [chemical binding]; other site 1288122002156 nudix motif; other site 1288122002157 metal binding site [ion binding]; metal-binding site 1288122002158 DNA gyrase inhibitor; Reviewed; Region: PRK00418 1288122002159 hypothetical protein; Provisional; Region: PRK05287 1288122002160 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1288122002161 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 1288122002162 CoA-binding site [chemical binding]; other site 1288122002163 ATP-binding [chemical binding]; other site 1288122002164 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 1288122002165 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1288122002166 active site 1288122002167 type IV pilin biogenesis protein; Provisional; Region: PRK10573 1288122002168 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1288122002169 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1288122002170 hypothetical protein; Provisional; Region: PRK10436 1288122002171 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1288122002172 Walker A motif; other site 1288122002173 ATP binding site [chemical binding]; other site 1288122002174 Walker B motif; other site 1288122002175 putative major pilin subunit; Provisional; Region: PRK10574 1288122002176 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1288122002177 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1288122002178 amidase catalytic site [active] 1288122002179 Zn binding residues [ion binding]; other site 1288122002180 substrate binding site [chemical binding]; other site 1288122002181 regulatory protein AmpE; Provisional; Region: PRK10987 1288122002182 aromatic amino acid transporter; Provisional; Region: PRK10238 1288122002183 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1288122002184 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122002185 DNA-binding site [nucleotide binding]; DNA binding site 1288122002186 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1288122002187 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1288122002188 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 1288122002189 dimer interface [polypeptide binding]; other site 1288122002190 TPP-binding site [chemical binding]; other site 1288122002191 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 1288122002192 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1288122002193 E3 interaction surface; other site 1288122002194 lipoyl attachment site [posttranslational modification]; other site 1288122002195 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1288122002196 E3 interaction surface; other site 1288122002197 lipoyl attachment site [posttranslational modification]; other site 1288122002198 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1288122002199 E3 interaction surface; other site 1288122002200 lipoyl attachment site [posttranslational modification]; other site 1288122002201 e3 binding domain; Region: E3_binding; pfam02817 1288122002202 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1288122002203 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1288122002204 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1288122002205 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122002206 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122002207 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1288122002208 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 1288122002209 substrate binding site [chemical binding]; other site 1288122002210 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1288122002211 substrate binding site [chemical binding]; other site 1288122002212 ligand binding site [chemical binding]; other site 1288122002213 Protein of unknown function (DUF533); Region: DUF533; pfam04391 1288122002214 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1288122002215 putative metal binding site [ion binding]; other site 1288122002216 hypothetical protein; Provisional; Region: PRK05248 1288122002217 aromatic amino acid exporter; Provisional; Region: PRK11689 1288122002218 Bacterial chaperone lipoprotein (PulS_OutS); Region: PulS_OutS; cl09898 1288122002219 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122002220 active site 1288122002221 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1288122002222 active site clefts [active] 1288122002223 zinc binding site [ion binding]; other site 1288122002224 dimer interface [polypeptide binding]; other site 1288122002225 DNA-binding response regulator CreB; Provisional; Region: PRK11083 1288122002226 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122002227 active site 1288122002228 phosphorylation site [posttranslational modification] 1288122002229 intermolecular recognition site; other site 1288122002230 dimerization interface [polypeptide binding]; other site 1288122002231 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122002232 DNA binding site [nucleotide binding] 1288122002233 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1288122002234 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1288122002235 Walker A/P-loop; other site 1288122002236 ATP binding site [chemical binding]; other site 1288122002237 Q-loop/lid; other site 1288122002238 ABC transporter signature motif; other site 1288122002239 Walker B; other site 1288122002240 D-loop; other site 1288122002241 H-loop/switch region; other site 1288122002242 inner membrane transport permease; Provisional; Region: PRK15066 1288122002243 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1288122002244 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1288122002245 active site 1288122002246 active pocket/dimerization site; other site 1288122002247 phosphorylation site [posttranslational modification] 1288122002248 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1288122002249 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1288122002250 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122002251 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1288122002252 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1288122002253 dimer interface [polypeptide binding]; other site 1288122002254 active site 1288122002255 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 1288122002256 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1288122002257 active site 1288122002258 phosphorylation site [posttranslational modification] 1288122002259 PTS system sorbose-specific iic component; Region: EII-Sor; pfam03609 1288122002260 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; pfam03613 1288122002261 Putative catalytic polysaccharide deacetylase domain of uncharacterized protein yadE and similar proteins; Region: CE4_yadE_5s; cd10966 1288122002262 putative active site [active] 1288122002263 putative metal binding site [ion binding]; other site 1288122002264 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 1288122002265 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 1288122002266 tetramerization interface [polypeptide binding]; other site 1288122002267 active site 1288122002268 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1288122002269 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1288122002270 active site 1288122002271 ATP-binding site [chemical binding]; other site 1288122002272 pantoate-binding site; other site 1288122002273 HXXH motif; other site 1288122002274 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1288122002275 oligomerization interface [polypeptide binding]; other site 1288122002276 active site 1288122002277 metal binding site [ion binding]; metal-binding site 1288122002278 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1288122002279 catalytic center binding site [active] 1288122002280 ATP binding site [chemical binding]; other site 1288122002281 poly(A) polymerase; Region: pcnB; TIGR01942 1288122002282 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1288122002283 active site 1288122002284 NTP binding site [chemical binding]; other site 1288122002285 metal binding triad [ion binding]; metal-binding site 1288122002286 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1288122002287 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1288122002288 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1288122002289 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 1288122002290 active site 1288122002291 nucleotide binding site [chemical binding]; other site 1288122002292 HIGH motif; other site 1288122002293 KMSKS motif; other site 1288122002294 RNA polymerase-binding transcription factor; Provisional; Region: dksA; PRK10778 1288122002295 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1288122002296 2'-5' RNA ligase; Provisional; Region: PRK15124 1288122002297 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1288122002298 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1288122002299 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1288122002300 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122002301 ATP binding site [chemical binding]; other site 1288122002302 putative Mg++ binding site [ion binding]; other site 1288122002303 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122002304 nucleotide binding region [chemical binding]; other site 1288122002305 ATP-binding site [chemical binding]; other site 1288122002306 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1288122002307 bifunctional glycosyl transferase/transpeptidase; Reviewed; Region: mrcB; PRK09506 1288122002308 Transglycosylase; Region: Transgly; pfam00912 1288122002309 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1288122002310 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1288122002311 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1288122002312 trimer interface [polypeptide binding]; other site 1288122002313 eyelet of channel; other site 1288122002314 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 1288122002315 alkaline phosphatase isozyme conversion aminopeptidase; Provisional; Region: PRK10199 1288122002316 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 1288122002317 metal binding site [ion binding]; metal-binding site 1288122002318 hypothetical protein; Provisional; Region: PRK10726 1288122002319 FlxA-like protein; Region: FlxA; pfam14282 1288122002320 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1288122002321 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1288122002322 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1288122002323 dimerization interface [polypeptide binding]; other site 1288122002324 active site 1288122002325 hypothetical protein; Provisional; Region: PRK10506 1288122002326 hypothetical protein; Provisional; Region: PRK10557 1288122002327 Protein of unknown function (DUF2509); Region: DUF2509; cl11672 1288122002328 Prepilin peptidase dependent protein C term (DUF3728); Region: DUF3728; pfam12528 1288122002329 Exonuclease V gamma subunit [DNA replication, recombination, and repair]; Region: RecC; COG1330 1288122002330 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1288122002331 protease3; Provisional; Region: PRK15101 1288122002332 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1288122002333 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1288122002334 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1288122002335 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1288122002336 Family description; Region: UvrD_C_2; pfam13538 1288122002337 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1288122002338 AAA domain; Region: AAA_30; pfam13604 1288122002339 Family description; Region: UvrD_C_2; pfam13538 1288122002340 N-acetylglutamate synthase; Validated; Region: PRK05279 1288122002341 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 1288122002342 putative feedback inhibition sensing region; other site 1288122002343 putative nucleotide binding site [chemical binding]; other site 1288122002344 putative substrate binding site [chemical binding]; other site 1288122002345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122002346 Coenzyme A binding pocket [chemical binding]; other site 1288122002347 AMIN domain; Region: AMIN; pfam11741 1288122002348 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1288122002349 active site 1288122002350 metal binding site [ion binding]; metal-binding site 1288122002351 murein transglycosylase A; Provisional; Region: mltA; PRK11162 1288122002352 MltA specific insert domain; Region: MltA; pfam03562 1288122002353 3D domain; Region: 3D; pfam06725 1288122002354 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1288122002355 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 1288122002356 putative ATP binding site [chemical binding]; other site 1288122002357 putative substrate interface [chemical binding]; other site 1288122002358 Fe-S metabolism associated domain; Region: SufE; cl00951 1288122002359 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1288122002360 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 1288122002361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122002362 catalytic residue [active] 1288122002363 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1288122002364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122002365 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1288122002366 dimerization interface [polypeptide binding]; other site 1288122002367 substrate binding pocket [chemical binding]; other site 1288122002368 hypothetical protein; Provisional; Region: PRK10873 1288122002369 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1288122002370 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1288122002371 flap endonuclease-like protein; Provisional; Region: PRK09482 1288122002372 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1288122002373 active site 1288122002374 metal binding site 1 [ion binding]; metal-binding site 1288122002375 putative 5' ssDNA interaction site; other site 1288122002376 metal binding site 3; metal-binding site 1288122002377 metal binding site 2 [ion binding]; metal-binding site 1288122002378 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1288122002379 putative DNA binding site [nucleotide binding]; other site 1288122002380 putative metal binding site [ion binding]; other site 1288122002381 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1288122002382 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1288122002383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1288122002384 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1288122002385 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1288122002386 SecY interacting protein Syd; Provisional; Region: PRK04968 1288122002387 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1288122002388 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1288122002389 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1288122002390 probable active site [active] 1288122002391 flavodoxin; Provisional; Region: PRK08105 1288122002392 hypothetical protein; Provisional; Region: PRK13677 1288122002393 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 1288122002394 Domain of unknown function (DUF305); Region: DUF305; cl17794 1288122002395 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1288122002396 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1288122002397 trimer interface [polypeptide binding]; other site 1288122002398 active site 1288122002399 substrate binding site [chemical binding]; other site 1288122002400 CoA binding site [chemical binding]; other site 1288122002401 PII uridylyl-transferase; Provisional; Region: PRK05007 1288122002402 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1288122002403 metal binding triad; other site 1288122002404 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1288122002405 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1288122002406 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1288122002407 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1288122002408 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 1288122002409 active site 1288122002410 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 1288122002411 rRNA interaction site [nucleotide binding]; other site 1288122002412 S8 interaction site; other site 1288122002413 putative laminin-1 binding site; other site 1288122002414 elongation factor Ts; Provisional; Region: tsf; PRK09377 1288122002415 UBA/TS-N domain; Region: UBA; pfam00627 1288122002416 Elongation factor TS; Region: EF_TS; pfam00889 1288122002417 Elongation factor TS; Region: EF_TS; pfam00889 1288122002418 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 1288122002419 putative nucleotide binding site [chemical binding]; other site 1288122002420 uridine monophosphate binding site [chemical binding]; other site 1288122002421 homohexameric interface [polypeptide binding]; other site 1288122002422 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1288122002423 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 1288122002424 hinge region; other site 1288122002425 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1288122002426 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1288122002427 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1288122002428 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1288122002429 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1288122002430 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1288122002431 catalytic residue [active] 1288122002432 putative FPP diphosphate binding site; other site 1288122002433 putative FPP binding hydrophobic cleft; other site 1288122002434 dimer interface [polypeptide binding]; other site 1288122002435 putative IPP diphosphate binding site; other site 1288122002436 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1288122002437 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1288122002438 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1288122002439 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1288122002440 active site 1288122002441 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1288122002442 protein binding site [polypeptide binding]; other site 1288122002443 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1288122002444 protein binding site [polypeptide binding]; other site 1288122002445 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1288122002446 putative substrate binding region [chemical binding]; other site 1288122002447 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1288122002448 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1288122002449 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1288122002450 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1288122002451 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1288122002452 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1288122002453 Surface antigen; Region: Bac_surface_Ag; pfam01103 1288122002454 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: HlpA; COG2825 1288122002455 periplasmic chaperone; Provisional; Region: PRK10780 1288122002456 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1288122002457 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1288122002458 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 1288122002459 trimer interface [polypeptide binding]; other site 1288122002460 active site 1288122002461 UDP-GlcNAc binding site [chemical binding]; other site 1288122002462 lipid binding site [chemical binding]; lipid-binding site 1288122002463 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1288122002464 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1288122002465 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 1288122002466 active site 1288122002467 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1288122002468 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1288122002469 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1288122002470 RNA/DNA hybrid binding site [nucleotide binding]; other site 1288122002471 active site 1288122002472 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1288122002473 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1288122002474 putative active site [active] 1288122002475 putative PHP Thumb interface [polypeptide binding]; other site 1288122002476 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1288122002477 generic binding surface II; other site 1288122002478 generic binding surface I; other site 1288122002479 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1288122002480 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1288122002481 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 1288122002482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1288122002483 putative metal binding site [ion binding]; other site 1288122002484 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 1288122002485 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 1288122002486 lysine decarboxylase CadA; Provisional; Region: PRK15400 1288122002487 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1288122002488 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1288122002489 homodimer interface [polypeptide binding]; other site 1288122002490 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122002491 catalytic residue [active] 1288122002492 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1288122002493 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1288122002494 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122002495 putative substrate translocation pore; other site 1288122002496 POT family; Region: PTR2; pfam00854 1288122002497 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 1288122002498 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 1288122002499 Ligand Binding Site [chemical binding]; other site 1288122002500 TilS substrate binding domain; Region: TilS; pfam09179 1288122002501 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1288122002502 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1288122002503 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; cl09210 1288122002504 hypothetical protein; Provisional; Region: PRK04964 1288122002505 YaeQ protein; Region: YaeQ; pfam07152 1288122002506 hypothetical protein; Provisional; Region: PRK09256 1288122002507 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 1288122002508 NlpE N-terminal domain; Region: NlpE; pfam04170 1288122002509 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1288122002510 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1288122002511 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11557 1288122002512 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1288122002513 putative active site [active] 1288122002514 hypothetical protein; Provisional; Region: PRK11590 1288122002515 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1288122002516 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1288122002517 dimer interface [polypeptide binding]; other site 1288122002518 active site 1288122002519 metal binding site [ion binding]; metal-binding site 1288122002520 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1288122002521 active site residue [active] 1288122002522 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 1288122002523 nucleoside/Zn binding site; other site 1288122002524 dimer interface [polypeptide binding]; other site 1288122002525 catalytic motif [active] 1288122002526 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1288122002527 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122002528 substrate binding pocket [chemical binding]; other site 1288122002529 membrane-bound complex binding site; other site 1288122002530 hinge residues; other site 1288122002531 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122002532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122002533 catalytic residue [active] 1288122002534 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1288122002535 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1288122002536 dimerization interface [polypeptide binding]; other site 1288122002537 ATP binding site [chemical binding]; other site 1288122002538 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 1288122002539 dimerization interface [polypeptide binding]; other site 1288122002540 ATP binding site [chemical binding]; other site 1288122002541 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1288122002542 putative active site [active] 1288122002543 catalytic triad [active] 1288122002544 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1288122002545 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122002546 dimer interface [polypeptide binding]; other site 1288122002547 phosphorylation site [posttranslational modification] 1288122002548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122002549 ATP binding site [chemical binding]; other site 1288122002550 Mg2+ binding site [ion binding]; other site 1288122002551 G-X-G motif; other site 1288122002552 YfhG lipoprotein; Region: Lipoprotein_20; cl08141 1288122002553 response regulator GlrR; Provisional; Region: PRK15115 1288122002554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122002555 active site 1288122002556 phosphorylation site [posttranslational modification] 1288122002557 intermolecular recognition site; other site 1288122002558 dimerization interface [polypeptide binding]; other site 1288122002559 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122002560 Walker A motif; other site 1288122002561 ATP binding site [chemical binding]; other site 1288122002562 Walker B motif; other site 1288122002563 arginine finger; other site 1288122002564 NAD synthetase; Provisional; Region: PRK13981 1288122002565 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1288122002566 multimer interface [polypeptide binding]; other site 1288122002567 active site 1288122002568 catalytic triad [active] 1288122002569 protein interface 1 [polypeptide binding]; other site 1288122002570 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1288122002571 homodimer interface [polypeptide binding]; other site 1288122002572 NAD binding pocket [chemical binding]; other site 1288122002573 ATP binding pocket [chemical binding]; other site 1288122002574 Mg binding site [ion binding]; other site 1288122002575 active-site loop [active] 1288122002576 nitrogen regulatory protein P-II 1; Provisional; Region: PRK10858 1288122002577 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1288122002578 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 1288122002579 active site 1288122002580 dimer interface [polypeptide binding]; other site 1288122002581 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1288122002582 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1288122002583 putative active site [active] 1288122002584 putative dimer interface [polypeptide binding]; other site 1288122002585 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1288122002586 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1288122002587 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1288122002588 ApbE family; Region: ApbE; pfam02424 1288122002589 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1288122002590 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1288122002591 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1288122002592 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122002593 catalytic residue [active] 1288122002594 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1288122002595 active site 1288122002596 DNA polymerase IV; Validated; Region: PRK02406 1288122002597 DNA binding site [nucleotide binding] 1288122002598 peptidase T; Region: peptidase-T; TIGR01882 1288122002599 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1288122002600 metal binding site [ion binding]; metal-binding site 1288122002601 dimer interface [polypeptide binding]; other site 1288122002602 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1288122002603 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 1288122002604 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1288122002605 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1288122002606 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 1288122002607 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 1288122002608 metal binding site [ion binding]; metal-binding site 1288122002609 dimer interface [polypeptide binding]; other site 1288122002610 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122002611 active site 1288122002612 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 1288122002613 DNA-binding transcriptional regulator Crl; Provisional; Region: PRK10984 1288122002614 gamma-glutamyl kinase; Provisional; Region: PRK05429 1288122002615 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 1288122002616 nucleotide binding site [chemical binding]; other site 1288122002617 homotetrameric interface [polypeptide binding]; other site 1288122002618 putative phosphate binding site [ion binding]; other site 1288122002619 putative allosteric binding site; other site 1288122002620 PUA domain; Region: PUA; pfam01472 1288122002621 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1288122002622 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1288122002623 putative catalytic cysteine [active] 1288122002624 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1288122002625 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1288122002626 NAD(P) binding site [chemical binding]; other site 1288122002627 substrate binding site [chemical binding]; other site 1288122002628 dimer interface [polypeptide binding]; other site 1288122002629 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1288122002630 Predicted ATPase [General function prediction only]; Region: COG5293 1288122002631 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1288122002632 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 1288122002633 Part of AAA domain; Region: AAA_19; pfam13245 1288122002634 Family description; Region: UvrD_C_2; pfam13538 1288122002635 AAA ATPase domain; Region: AAA_15; pfam13175 1288122002636 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122002637 Walker A/P-loop; other site 1288122002638 ATP binding site [chemical binding]; other site 1288122002639 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1288122002640 putative active site [active] 1288122002641 putative metal-binding site [ion binding]; other site 1288122002642 HNH endonuclease; Region: HNH_2; pfam13391 1288122002643 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 1288122002644 DNA-binding interface [nucleotide binding]; DNA binding site 1288122002645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1288122002646 Integrase core domain; Region: rve; pfam00665 1288122002647 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 1288122002648 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002649 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 1288122002650 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 1288122002651 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1288122002652 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 1288122002653 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002654 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002655 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002656 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1288122002657 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1288122002658 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1288122002659 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1288122002660 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1288122002661 dimer interface [polypeptide binding]; other site 1288122002662 active site 1288122002663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122002664 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1288122002665 NAD(P) binding site [chemical binding]; other site 1288122002666 active site 1288122002667 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 1288122002668 putative active site 1 [active] 1288122002669 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1288122002670 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1288122002671 dimer interface [polypeptide binding]; other site 1288122002672 active site 1288122002673 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 1288122002674 Predicted exporter [General function prediction only]; Region: COG4258 1288122002675 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1288122002676 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1288122002677 active site 1288122002678 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1288122002679 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1288122002680 Ligand binding site; other site 1288122002681 Putative Catalytic site; other site 1288122002682 DXD motif; other site 1288122002683 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1288122002684 putative acyl-acceptor binding pocket; other site 1288122002685 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1288122002686 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1288122002687 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1288122002688 acyl-activating enzyme (AAE) consensus motif; other site 1288122002689 AMP binding site [chemical binding]; other site 1288122002690 active site 1288122002691 CoA binding site [chemical binding]; other site 1288122002692 Predicted membrane protein [Function unknown]; Region: COG4648 1288122002693 acyl carrier protein; Provisional; Region: PRK05350 1288122002694 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1288122002695 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1288122002696 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1288122002697 putative acyl-acceptor binding pocket; other site 1288122002698 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1288122002699 Methyltransferase domain; Region: Methyltransf_18; pfam12847 1288122002700 S-adenosylmethionine binding site [chemical binding]; other site 1288122002701 tryptophan permease TnaB; Provisional; Region: PRK09664 1288122002702 aromatic amino acid transport protein; Region: araaP; TIGR00837 1288122002703 tryptophanase, leader peptide-associated; Region: tnaA_trp_ase; TIGR02617 1288122002704 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1288122002705 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122002706 catalytic residue [active] 1288122002707 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 1288122002708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122002709 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 1288122002710 dimerization interface [polypeptide binding]; other site 1288122002711 substrate binding pocket [chemical binding]; other site 1288122002712 permease DsdX; Provisional; Region: PRK09921 1288122002713 gluconate transporter; Region: gntP; TIGR00791 1288122002714 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 1288122002715 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1288122002716 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122002717 catalytic residue [active] 1288122002718 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1288122002719 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1288122002720 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1288122002721 Moco binding site; other site 1288122002722 metal coordination site [ion binding]; other site 1288122002723 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1288122002724 guanine deaminase; Region: guan_deamin; TIGR02967 1288122002725 active site 1288122002726 type III secretion system protein SsaL; Provisional; Region: PRK15345 1288122002727 HrpJ-like domain; Region: HrpJ; pfam07201 1288122002728 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 1288122002729 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 1288122002730 Type III secretion needle MxiH like; Region: MxiH; pfam09392 1288122002731 Protein of unknown function (DUF1039); Region: DUF1039; pfam06287 1288122002732 Type III secretion needle MxiH like; Region: MxiH; cl09641 1288122002733 Helix-turn-helix domain; Region: HTH_18; pfam12833 1288122002734 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122002735 Protein of unknown function (DUF1895); Region: DUF1895; cl07553 1288122002736 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1288122002737 type III secretion system protein SsaD; Provisional; Region: PRK15367 1288122002738 outer membrane secretin SsaC; Provisional; Region: PRK15346 1288122002739 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1288122002740 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1288122002741 pathogenicity island 2 effector protein SseG; Provisional; Region: PRK15357 1288122002742 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1288122002743 Tetratricopeptide repeat; Region: TPR_3; pfam07720 1288122002744 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 1288122002745 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 1288122002746 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 1288122002747 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 1288122002748 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122002749 binding surface 1288122002750 TPR motif; other site 1288122002751 EspA-like secreted protein; Region: EspA; pfam03433 1288122002752 hypothetical protein; Provisional; Region: PRK11820 1288122002753 type III secretion system protein SsaQ; Validated; Region: PRK08035 1288122002754 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1288122002755 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 1288122002756 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1288122002757 Walker A motif; other site 1288122002758 ATP binding site [chemical binding]; other site 1288122002759 Walker B motif; other site 1288122002760 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 1288122002761 FHIPEP family; Region: FHIPEP; pfam00771 1288122002762 type III secretion system protein SsaM; Provisional; Region: PRK15353 1288122002763 type III secretion system protein YscR; Provisional; Region: PRK12797 1288122002764 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 1288122002765 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1288122002766 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 1288122002767 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1288122002768 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1288122002769 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122002770 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122002771 catalytic residue [active] 1288122002772 two component system sensor kinase SsrA; Provisional; Region: PRK15347 1288122002773 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122002774 dimer interface [polypeptide binding]; other site 1288122002775 phosphorylation site [posttranslational modification] 1288122002776 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122002777 ATP binding site [chemical binding]; other site 1288122002778 Mg2+ binding site [ion binding]; other site 1288122002779 G-X-G motif; other site 1288122002780 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122002781 active site 1288122002782 phosphorylation site [posttranslational modification] 1288122002783 intermolecular recognition site; other site 1288122002784 dimerization interface [polypeptide binding]; other site 1288122002785 Hpt domain; Region: Hpt; pfam01627 1288122002786 putative binding surface; other site 1288122002787 active site 1288122002788 two component system sensor kinase SsrB; Provisional; Region: PRK15369 1288122002789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122002790 active site 1288122002791 phosphorylation site [posttranslational modification] 1288122002792 intermolecular recognition site; other site 1288122002793 dimerization interface [polypeptide binding]; other site 1288122002794 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122002795 DNA binding residues [nucleotide binding] 1288122002796 dimerization interface [polypeptide binding]; other site 1288122002797 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1288122002798 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1288122002799 dimer interface [polypeptide binding]; other site 1288122002800 active site 1288122002801 heme binding site [chemical binding]; other site 1288122002802 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1288122002803 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 1288122002804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122002805 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122002806 dimerization interface [polypeptide binding]; other site 1288122002807 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1288122002808 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 1288122002809 tetramer interface [polypeptide binding]; other site 1288122002810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122002811 catalytic residue [active] 1288122002812 threonine/serine transporter TdcC; Provisional; Region: PRK13629 1288122002813 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1288122002814 propionate/acetate kinase; Provisional; Region: PRK12379 1288122002815 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1288122002816 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1288122002817 Pyruvate formate lyase 1; Region: PFL1; cd01678 1288122002818 coenzyme A binding site [chemical binding]; other site 1288122002819 active site 1288122002820 catalytic residues [active] 1288122002821 glycine loop; other site 1288122002822 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1288122002823 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 1288122002824 dimer interface [polypeptide binding]; other site 1288122002825 active site 1288122002826 metal binding site [ion binding]; metal-binding site 1288122002827 Accessory colonization factor AcfC, contains ABC-type periplasmic domain [General function prediction only]; Region: AcfC; COG4588 1288122002828 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1288122002829 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 1288122002830 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 1288122002831 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1288122002832 active site 1288122002833 metal binding site [ion binding]; metal-binding site 1288122002834 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 1288122002835 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1288122002836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122002837 dimer interface [polypeptide binding]; other site 1288122002838 putative PBP binding loops; other site 1288122002839 ABC-ATPase subunit interface; other site 1288122002840 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122002841 dimer interface [polypeptide binding]; other site 1288122002842 conserved gate region; other site 1288122002843 putative PBP binding loops; other site 1288122002844 ABC-ATPase subunit interface; other site 1288122002845 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1288122002846 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1288122002847 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1288122002848 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122002849 Walker A/P-loop; other site 1288122002850 ATP binding site [chemical binding]; other site 1288122002851 Q-loop/lid; other site 1288122002852 ABC transporter signature motif; other site 1288122002853 Walker B; other site 1288122002854 D-loop; other site 1288122002855 H-loop/switch region; other site 1288122002856 TOBE domain; Region: TOBE_2; pfam08402 1288122002857 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 1288122002858 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 1288122002859 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 1288122002860 haemagglutination activity domain; Region: Haemagg_act; pfam05860 1288122002861 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002862 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002863 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002864 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002865 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002866 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 1288122002867 D-alanyl-D-alanine carboxypeptidase; Provisional; Region: dacD; PRK11397 1288122002868 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1288122002869 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1288122002870 putative formate acetyltransferase 2; Provisional; Region: pflD; PRK09983 1288122002871 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1288122002872 dimer interface [polypeptide binding]; other site 1288122002873 active site 1288122002874 glycine loop; other site 1288122002875 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 1288122002876 FeS/SAM binding site; other site 1288122002877 pyruvate formate lyase II activase; Provisional; Region: PRK10076 1288122002878 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1288122002879 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122002880 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 1288122002881 dimer interface [polypeptide binding]; other site 1288122002882 FMN binding site [chemical binding]; other site 1288122002883 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1288122002884 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1288122002885 putative active site [active] 1288122002886 cell density-dependent motility repressor; Provisional; Region: PRK10082 1288122002887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122002888 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1288122002889 dimerization interface [polypeptide binding]; other site 1288122002890 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1288122002891 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 1288122002892 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1288122002893 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1288122002894 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1288122002895 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1288122002896 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122002897 putative PBP binding loops; other site 1288122002898 ABC-ATPase subunit interface; other site 1288122002899 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 1288122002900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122002901 ATP binding site [chemical binding]; other site 1288122002902 Q-loop/lid; other site 1288122002903 ABC transporter signature motif; other site 1288122002904 Walker B; other site 1288122002905 D-loop; other site 1288122002906 H-loop/switch region; other site 1288122002907 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1288122002908 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1288122002909 Class I aldolases; Region: Aldolase_Class_I; cl17187 1288122002910 catalytic residue [active] 1288122002911 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1288122002912 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1288122002913 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1288122002914 putative active site [active] 1288122002915 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u3; cd11495 1288122002916 Na binding site [ion binding]; other site 1288122002917 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; pfam06178 1288122002918 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 1288122002919 Galactose oxidase, central domain; Region: Kelch_3; pfam13415 1288122002920 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1288122002921 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1288122002922 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122002923 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122002924 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1288122002925 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122002926 dUMP phosphatase; Provisional; Region: PRK09449 1288122002927 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122002928 motif II; other site 1288122002929 Protein of unknown function (DUF2623); Region: DUF2623; pfam11115 1288122002930 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1288122002931 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1288122002932 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1288122002933 putative chaperone; Provisional; Region: PRK11678 1288122002934 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1288122002935 nucleotide binding site [chemical binding]; other site 1288122002936 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1288122002937 SBD interface [polypeptide binding]; other site 1288122002938 MASE1; Region: MASE1; cl17823 1288122002939 PAS domain S-box; Region: sensory_box; TIGR00229 1288122002940 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122002941 putative active site [active] 1288122002942 heme pocket [chemical binding]; other site 1288122002943 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122002944 PAS domain; Region: PAS_9; pfam13426 1288122002945 putative active site [active] 1288122002946 heme pocket [chemical binding]; other site 1288122002947 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122002948 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122002949 metal binding site [ion binding]; metal-binding site 1288122002950 active site 1288122002951 I-site; other site 1288122002952 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122002953 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1288122002954 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1288122002955 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1288122002956 Protein of unknown function (DUF2633); Region: DUF2633; pfam11119 1288122002957 MASE1; Region: MASE1; cl17823 1288122002958 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1288122002959 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122002960 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1288122002961 putative proline-specific permease; Provisional; Region: proY; PRK10580 1288122002962 Spore germination protein; Region: Spore_permease; cl17796 1288122002963 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1288122002964 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122002965 maltodextrin glucosidase; Provisional; Region: PRK10785 1288122002966 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 1288122002967 homodimer interface [polypeptide binding]; other site 1288122002968 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 1288122002969 active site 1288122002970 homodimer interface [polypeptide binding]; other site 1288122002971 catalytic site [active] 1288122002972 peroxidase; Provisional; Region: PRK15000 1288122002973 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1288122002974 dimer interface [polypeptide binding]; other site 1288122002975 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1288122002976 catalytic triad [active] 1288122002977 peroxidatic and resolving cysteines [active] 1288122002978 Protein of unknown function, DUF479; Region: DUF479; cl01203 1288122002979 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1288122002980 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1288122002981 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1288122002982 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1288122002983 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1288122002984 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1288122002985 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1288122002986 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1288122002987 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1288122002988 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1288122002989 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1288122002990 Protein export membrane protein; Region: SecD_SecF; pfam02355 1288122002991 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122002992 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1288122002993 Walker A motif; other site 1288122002994 ATP binding site [chemical binding]; other site 1288122002995 Walker B motif; other site 1288122002996 arginine finger; other site 1288122002997 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1288122002998 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1288122002999 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003000 putative substrate translocation pore; other site 1288122003001 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003002 EthD domain; Region: EthD; cl17553 1288122003003 EthD domain; Region: EthD; cl17553 1288122003004 EthD domain; Region: EthD; cl17553 1288122003005 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1288122003006 classical (c) SDRs; Region: SDR_c; cd05233 1288122003007 NAD(P) binding site [chemical binding]; other site 1288122003008 active site 1288122003009 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1288122003010 classical (c) SDRs; Region: SDR_c; cd05233 1288122003011 NAD(P) binding site [chemical binding]; other site 1288122003012 active site 1288122003013 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1288122003014 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1288122003015 active site 1288122003016 FMN binding site [chemical binding]; other site 1288122003017 substrate binding site [chemical binding]; other site 1288122003018 putative catalytic residue [active] 1288122003019 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 1288122003020 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122003021 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 1288122003022 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 1288122003023 active site 1288122003024 FMN binding site [chemical binding]; other site 1288122003025 substrate binding site [chemical binding]; other site 1288122003026 putative catalytic residue [active] 1288122003027 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1288122003028 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122003029 potential frameshift: common BLAST hit: gi|269138327|ref|YP_003295027.1| amino acid transporter 1288122003030 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1288122003031 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122003032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122003033 homodimer interface [polypeptide binding]; other site 1288122003034 catalytic residue [active] 1288122003035 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1288122003036 ATP cone domain; Region: ATP-cone; pfam03477 1288122003037 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1288122003038 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 1288122003039 catalytic motif [active] 1288122003040 Zn binding site [ion binding]; other site 1288122003041 RibD C-terminal domain; Region: RibD_C; cl17279 1288122003042 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 1288122003043 homopentamer interface [polypeptide binding]; other site 1288122003044 active site 1288122003045 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 1288122003046 putative RNA binding site [nucleotide binding]; other site 1288122003047 thiamine monophosphate kinase; Provisional; Region: PRK05731 1288122003048 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 1288122003049 ATP binding site [chemical binding]; other site 1288122003050 dimerization interface [polypeptide binding]; other site 1288122003051 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1288122003052 tetramer interfaces [polypeptide binding]; other site 1288122003053 binuclear metal-binding site [ion binding]; other site 1288122003054 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1288122003055 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 1288122003056 TPP-binding site; other site 1288122003057 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1288122003058 PYR/PP interface [polypeptide binding]; other site 1288122003059 dimer interface [polypeptide binding]; other site 1288122003060 TPP binding site [chemical binding]; other site 1288122003061 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1288122003062 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1288122003063 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1288122003064 substrate binding pocket [chemical binding]; other site 1288122003065 chain length determination region; other site 1288122003066 substrate-Mg2+ binding site; other site 1288122003067 catalytic residues [active] 1288122003068 aspartate-rich region 1; other site 1288122003069 active site lid residues [active] 1288122003070 aspartate-rich region 2; other site 1288122003071 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1288122003072 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1288122003073 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1288122003074 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 1288122003075 Ligand Binding Site [chemical binding]; other site 1288122003076 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1288122003077 active site residue [active] 1288122003078 oxidative-stress-resistance chaperone; Provisional; Region: PRK11574 1288122003079 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1288122003080 conserved cys residue [active] 1288122003081 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 1288122003082 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1288122003083 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1288122003084 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 1288122003085 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 1288122003086 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003087 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1288122003088 putative substrate translocation pore; other site 1288122003089 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1288122003090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003091 hypothetical protein; Provisional; Region: PRK11627 1288122003092 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1288122003093 transcriptional regulator BolA; Provisional; Region: PRK11628 1288122003094 trigger factor; Provisional; Region: tig; PRK01490 1288122003095 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122003096 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1288122003097 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1288122003098 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1288122003099 oligomer interface [polypeptide binding]; other site 1288122003100 active site residues [active] 1288122003101 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1288122003102 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1288122003103 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122003104 Walker A motif; other site 1288122003105 ATP binding site [chemical binding]; other site 1288122003106 Walker B motif; other site 1288122003107 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1288122003108 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 1288122003109 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1288122003110 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1288122003111 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122003112 Walker A motif; other site 1288122003113 ATP binding site [chemical binding]; other site 1288122003114 Walker B motif; other site 1288122003115 arginine finger; other site 1288122003116 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1288122003117 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1288122003118 IHF dimer interface [polypeptide binding]; other site 1288122003119 IHF - DNA interface [nucleotide binding]; other site 1288122003120 periplasmic folding chaperone; Provisional; Region: PRK10788 1288122003121 SurA N-terminal domain; Region: SurA_N_3; cl07813 1288122003122 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1288122003123 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1288122003124 competence protein ComEA helix-hairpin-helix repeat region; Region: TIGR00426 1288122003125 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1288122003126 Ligand Binding Site [chemical binding]; other site 1288122003127 potential frameshift: common BLAST hit: gi|387867074|ref|YP_005698543.1| periplasmic oligopeptide-binding protein oppA 1288122003128 thiamin pyrimidine pyrophosphate hydrolase; Provisional; Region: PRK15126 1288122003129 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1288122003130 active site 1288122003131 motif I; other site 1288122003132 motif II; other site 1288122003133 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1288122003134 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1288122003135 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122003136 putative DNA binding site [nucleotide binding]; other site 1288122003137 putative Zn2+ binding site [ion binding]; other site 1288122003138 AsnC family; Region: AsnC_trans_reg; pfam01037 1288122003139 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1288122003140 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1288122003141 ammonium transporter; Provisional; Region: PRK10666 1288122003142 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1288122003143 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1288122003144 active site 1288122003145 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1288122003146 catalytic triad [active] 1288122003147 dimer interface [polypeptide binding]; other site 1288122003148 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1288122003149 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1288122003150 DNA binding site [nucleotide binding] 1288122003151 active site 1288122003152 gene expression modulator; Provisional; Region: PRK10945 1288122003153 Hha toxicity attenuator; Provisional; Region: PRK10667 1288122003154 multidrug efflux system protein AcrB; Provisional; Region: PRK15127 1288122003155 Protein export membrane protein; Region: SecD_SecF; cl14618 1288122003156 Protein export membrane protein; Region: SecD_SecF; cl14618 1288122003157 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 1288122003158 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122003159 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122003160 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1288122003161 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122003162 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1288122003163 DsrE/DsrF-like family; Region: DrsE; cl00672 1288122003164 hypothetical protein; Provisional; Region: PRK11281 1288122003165 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 1288122003166 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122003167 hypothetical protein; Provisional; Region: PRK11038 1288122003168 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1288122003169 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1288122003170 hypothetical protein; Provisional; Region: PRK10527 1288122003171 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122003172 active site 1288122003173 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1288122003174 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122003175 Walker A motif; other site 1288122003176 ATP binding site [chemical binding]; other site 1288122003177 Walker B motif; other site 1288122003178 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1288122003179 arginine finger; other site 1288122003180 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1288122003181 DNA polymerase III subunits tau domain IV DnaB-binding; Region: DNA_pol3_tau_4; pfam12168 1288122003182 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1288122003183 hypothetical protein; Validated; Region: PRK00153 1288122003184 recombination protein RecR; Reviewed; Region: recR; PRK00076 1288122003185 RecR protein; Region: RecR; pfam02132 1288122003186 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 1288122003187 putative active site [active] 1288122003188 putative metal-binding site [ion binding]; other site 1288122003189 tetramer interface [polypeptide binding]; other site 1288122003190 heat shock protein 90; Provisional; Region: PRK05218 1288122003191 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122003192 ATP binding site [chemical binding]; other site 1288122003193 Mg2+ binding site [ion binding]; other site 1288122003194 G-X-G motif; other site 1288122003195 adenylate kinase; Reviewed; Region: adk; PRK00279 1288122003196 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 1288122003197 AMP-binding site [chemical binding]; other site 1288122003198 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1288122003199 ferrochelatase; Reviewed; Region: hemH; PRK00035 1288122003200 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1288122003201 C-terminal domain interface [polypeptide binding]; other site 1288122003202 active site 1288122003203 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 1288122003204 active site 1288122003205 N-terminal domain interface [polypeptide binding]; other site 1288122003206 inosine/guanosine kinase; Provisional; Region: PRK15074 1288122003207 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122003208 substrate binding site [chemical binding]; other site 1288122003209 ATP binding site [chemical binding]; other site 1288122003210 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1288122003211 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122003212 fimbrial assembly chaperone SthB; Provisional; Region: PRK15295 1288122003213 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122003214 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1288122003215 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122003216 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122003217 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122003218 Fimbrial protein; Region: Fimbrial; pfam00419 1288122003219 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 1288122003220 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 1288122003221 active site 1288122003222 metal binding site [ion binding]; metal-binding site 1288122003223 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1288122003224 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1288122003225 putative deacylase active site [active] 1288122003226 fructuronate transporter; Provisional; Region: PRK10034 1288122003227 gluconate transporter; Region: gntP; TIGR00791 1288122003228 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1288122003229 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122003230 DNA-binding site [nucleotide binding]; DNA binding site 1288122003231 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1288122003232 TraB family; Region: TraB; cl12050 1288122003233 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1288122003234 metal-binding site [ion binding] 1288122003235 copper exporting ATPase; Provisional; Region: copA; PRK10671 1288122003236 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1288122003237 metal-binding site [ion binding] 1288122003238 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1288122003239 metal-binding site [ion binding] 1288122003240 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1288122003241 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122003242 motif II; other site 1288122003243 DNA-binding transcriptional regulator CueR; Provisional; Region: PRK10227 1288122003244 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1288122003245 DNA binding residues [nucleotide binding] 1288122003246 dimer interface [polypeptide binding]; other site 1288122003247 copper binding site [ion binding]; other site 1288122003248 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1288122003249 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1288122003250 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1288122003251 HutD; Region: HutD; pfam05962 1288122003252 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1288122003253 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1288122003254 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 1288122003255 MFS_1 like family; Region: MFS_1_like; pfam12832 1288122003256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122003257 active site 1288122003258 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 1288122003259 active site 1288122003260 D-lactate dehydrogenase; Provisional; Region: PRK11183 1288122003261 FAD binding domain; Region: FAD_binding_4; pfam01565 1288122003262 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 1288122003263 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122003264 dimerization interface [polypeptide binding]; other site 1288122003265 putative DNA binding site [nucleotide binding]; other site 1288122003266 putative Zn2+ binding site [ion binding]; other site 1288122003267 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 1288122003268 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122003269 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122003270 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 1288122003271 active site residue [active] 1288122003272 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 1288122003273 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122003274 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1288122003275 putative dimerization interface [polypeptide binding]; other site 1288122003276 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 1288122003277 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 1288122003278 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1288122003279 tetramer interface [polypeptide binding]; other site 1288122003280 active site 1288122003281 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1288122003282 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1288122003283 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122003284 catalytic residue [active] 1288122003285 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1288122003286 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 1288122003287 active site 1288122003288 homotetramer interface [polypeptide binding]; other site 1288122003289 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1288122003290 substrate binding site [chemical binding]; other site 1288122003291 multimerization interface [polypeptide binding]; other site 1288122003292 ATP binding site [chemical binding]; other site 1288122003293 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1288122003294 dimer interface [polypeptide binding]; other site 1288122003295 substrate binding site [chemical binding]; other site 1288122003296 ATP binding site [chemical binding]; other site 1288122003297 Inhibitor of vertebrate lysozyme (Ivy); Region: Ivy; pfam08816 1288122003298 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1288122003299 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1288122003300 catalytic residues [active] 1288122003301 hinge region; other site 1288122003302 alpha helical domain; other site 1288122003303 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11482 1288122003304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122003305 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122003306 putative protease; Provisional; Region: PRK15452 1288122003307 Peptidase family U32; Region: Peptidase_U32; pfam01136 1288122003308 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1288122003309 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 1288122003310 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 1288122003311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122003312 active site 1288122003313 phosphorylation site [posttranslational modification] 1288122003314 intermolecular recognition site; other site 1288122003315 dimerization interface [polypeptide binding]; other site 1288122003316 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122003317 DNA binding site [nucleotide binding] 1288122003318 signal transduction histidine-protein kinase BaeS; Provisional; Region: PRK10549 1288122003319 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122003320 dimerization interface [polypeptide binding]; other site 1288122003321 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122003322 dimer interface [polypeptide binding]; other site 1288122003323 phosphorylation site [posttranslational modification] 1288122003324 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122003325 ATP binding site [chemical binding]; other site 1288122003326 Mg2+ binding site [ion binding]; other site 1288122003327 G-X-G motif; other site 1288122003328 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 1288122003329 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 1288122003330 Protein export membrane protein; Region: SecD_SecF; cl14618 1288122003331 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 1288122003332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122003333 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122003334 hypothetical protein; Provisional; Region: PRK10579 1288122003335 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_24; cd04683 1288122003336 nudix motif; other site 1288122003337 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1288122003338 fructokinase; Reviewed; Region: PRK09557 1288122003339 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122003340 nucleotide binding site [chemical binding]; other site 1288122003341 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1288122003342 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 1288122003343 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122003344 AAA domain; Region: AAA_23; pfam13476 1288122003345 Walker A/P-loop; other site 1288122003346 ATP binding site [chemical binding]; other site 1288122003347 Q-loop/lid; other site 1288122003348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122003349 ABC transporter signature motif; other site 1288122003350 Walker B; other site 1288122003351 D-loop; other site 1288122003352 H-loop/switch region; other site 1288122003353 exonuclease subunit SbcD; Provisional; Region: PRK10966 1288122003354 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1288122003355 active site 1288122003356 metal binding site [ion binding]; metal-binding site 1288122003357 DNA binding site [nucleotide binding] 1288122003358 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1288122003359 potential frameshift: common BLAST hit: gi|387867149|ref|YP_005698618.1| Phosphate regulon transcriptional regulatory protein PhoB 1288122003360 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1288122003361 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1288122003362 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122003363 putative active site [active] 1288122003364 heme pocket [chemical binding]; other site 1288122003365 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122003366 dimer interface [polypeptide binding]; other site 1288122003367 phosphorylation site [posttranslational modification] 1288122003368 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122003369 ATP binding site [chemical binding]; other site 1288122003370 Mg2+ binding site [ion binding]; other site 1288122003371 G-X-G motif; other site 1288122003372 exopolyphosphatase; Provisional; Region: PRK10854 1288122003373 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122003374 nucleotide binding site [chemical binding]; other site 1288122003375 polyphosphate kinase; Provisional; Region: PRK05443 1288122003376 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1288122003377 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1288122003378 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1288122003379 putative active site [active] 1288122003380 catalytic site [active] 1288122003381 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 1288122003382 putative active site [active] 1288122003383 catalytic site [active] 1288122003384 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 1288122003385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122003386 Coenzyme A binding pocket [chemical binding]; other site 1288122003387 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1288122003388 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1288122003389 active site 1288122003390 substrate binding site [chemical binding]; other site 1288122003391 cosubstrate binding site; other site 1288122003392 catalytic site [active] 1288122003393 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1288122003394 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1288122003395 dimerization interface [polypeptide binding]; other site 1288122003396 putative ATP binding site [chemical binding]; other site 1288122003397 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122003398 active site 1288122003399 uracil transporter; Provisional; Region: PRK10720 1288122003400 DoxX; Region: DoxX; pfam07681 1288122003401 DNA replication initiation factor; Provisional; Region: PRK08084 1288122003402 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1288122003403 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1288122003404 ArsC family; Region: ArsC; pfam03960 1288122003405 catalytic residues [active] 1288122003406 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1288122003407 Peptidase family M48; Region: Peptidase_M48; pfam01435 1288122003408 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1288122003409 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1288122003410 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 1288122003411 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1288122003412 catalytic triad [active] 1288122003413 glycine cleavage system transcriptional repressor; Provisional; Region: gcvR; PRK11589 1288122003414 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 1288122003415 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1288122003416 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1288122003417 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1288122003418 dimer interface [polypeptide binding]; other site 1288122003419 active site 1288122003420 catalytic residue [active] 1288122003421 lipoprotein; Provisional; Region: PRK11679 1288122003422 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1288122003423 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1288122003424 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1288122003425 ATP binding site [chemical binding]; other site 1288122003426 active site 1288122003427 substrate binding site [chemical binding]; other site 1288122003428 Putative cyclase; Region: Cyclase; cl00814 1288122003429 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 1288122003430 amphipathic channel; other site 1288122003431 Asn-Pro-Ala signature motifs; other site 1288122003432 hypothetical protein; Provisional; Region: PRK06489 1288122003433 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1288122003434 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1288122003435 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1288122003436 Helicase; Region: Helicase_RecD; pfam05127 1288122003437 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1288122003438 putative hydrolase; Provisional; Region: PRK11460 1288122003439 Predicted esterase [General function prediction only]; Region: COG0400 1288122003440 Uncharacterized protein family (UPF0370); Region: UPF0370; pfam13980 1288122003441 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1288122003442 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1288122003443 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1288122003444 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1288122003445 metal binding site [ion binding]; metal-binding site 1288122003446 dimer interface [polypeptide binding]; other site 1288122003447 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1288122003448 ArsC family; Region: ArsC; pfam03960 1288122003449 putative catalytic residues [active] 1288122003450 aminoglycoside/multidrug efflux system; Provisional; Region: PRK10555 1288122003451 Protein export membrane protein; Region: SecD_SecF; cl14618 1288122003452 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 1288122003453 transcriptional regulator NarP; Provisional; Region: PRK10403 1288122003454 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122003455 active site 1288122003456 phosphorylation site [posttranslational modification] 1288122003457 intermolecular recognition site; other site 1288122003458 dimerization interface [polypeptide binding]; other site 1288122003459 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122003460 DNA binding residues [nucleotide binding] 1288122003461 dimerization interface [polypeptide binding]; other site 1288122003462 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 1288122003463 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1288122003464 HAMP domain; Region: HAMP; pfam00672 1288122003465 dimerization interface [polypeptide binding]; other site 1288122003466 Histidine kinase; Region: HisKA_3; pfam07730 1288122003467 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122003468 ATP binding site [chemical binding]; other site 1288122003469 Mg2+ binding site [ion binding]; other site 1288122003470 G-X-G motif; other site 1288122003471 ferredoxin-type protein; Provisional; Region: PRK10194 1288122003472 assembly protein for periplasmic nitrate reductase; Provisional; Region: PRK10553 1288122003473 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 1288122003474 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 1288122003475 [4Fe-4S] binding site [ion binding]; other site 1288122003476 molybdopterin cofactor binding site; other site 1288122003477 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 1288122003478 molybdopterin cofactor binding site; other site 1288122003479 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 1288122003480 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 1288122003481 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1288122003482 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122003483 nitrate reductase cytochrome C550 subunit; Provisional; Region: napB; PRK11586 1288122003484 cytochrome c-type protein NapC; Provisional; Region: PRK10617 1288122003485 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 1288122003486 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1288122003487 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1288122003488 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1288122003489 NAD(P) binding site [chemical binding]; other site 1288122003490 polyol permease family; Region: 2A0118; TIGR00897 1288122003491 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003492 short chain dehydrogenase; Provisional; Region: PRK06841 1288122003493 classical (c) SDRs; Region: SDR_c; cd05233 1288122003494 NAD(P) binding site [chemical binding]; other site 1288122003495 active site 1288122003496 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1288122003497 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1288122003498 DAK2 domain; Region: Dak2; pfam02734 1288122003499 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1288122003500 putative switch regulator; other site 1288122003501 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1288122003502 non-specific DNA interactions [nucleotide binding]; other site 1288122003503 DNA binding site [nucleotide binding] 1288122003504 sequence specific DNA binding site [nucleotide binding]; other site 1288122003505 putative cAMP binding site [chemical binding]; other site 1288122003506 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1288122003507 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 1288122003508 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1288122003509 dimer interface [polypeptide binding]; other site 1288122003510 ADP-ribose binding site [chemical binding]; other site 1288122003511 active site 1288122003512 nudix motif; other site 1288122003513 metal binding site [ion binding]; metal-binding site 1288122003514 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 1288122003515 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1288122003516 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1288122003517 putative NAD(P) binding site [chemical binding]; other site 1288122003518 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1288122003519 Protein of unknown function, DUF399; Region: DUF399; pfam04187 1288122003520 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1671 1288122003521 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1288122003522 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1288122003523 N-acetylmuramoyl-l-alanine amidase I; Provisional; Region: PRK10319 1288122003524 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1288122003525 active site 1288122003526 metal binding site [ion binding]; metal-binding site 1288122003527 putative acetyltransferase; Provisional; Region: PRK03624 1288122003528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122003529 Coenzyme A binding pocket [chemical binding]; other site 1288122003530 RpoE-regulated lipoprotein; Provisional; Region: PRK10718 1288122003531 Protein of unknown function (DUF1131); Region: DUF1131; pfam06572 1288122003532 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 1288122003533 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1288122003534 HPr interaction site; other site 1288122003535 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1288122003536 active site 1288122003537 phosphorylation site [posttranslational modification] 1288122003538 phosphoenolpyruvate-protein phosphotransferase; Provisional; Region: PRK11177 1288122003539 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1288122003540 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1288122003541 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1288122003542 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1288122003543 dimerization domain swap beta strand [polypeptide binding]; other site 1288122003544 regulatory protein interface [polypeptide binding]; other site 1288122003545 active site 1288122003546 regulatory phosphorylation site [posttranslational modification]; other site 1288122003547 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1288122003548 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1288122003549 dimer interface [polypeptide binding]; other site 1288122003550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122003551 catalytic residue [active] 1288122003552 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1288122003553 cell division protein ZipA; Provisional; Region: PRK03427 1288122003554 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cd00231 1288122003555 FtsZ protein binding site [polypeptide binding]; other site 1288122003556 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1288122003557 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 1288122003558 nucleotide binding pocket [chemical binding]; other site 1288122003559 K-X-D-G motif; other site 1288122003560 catalytic site [active] 1288122003561 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1288122003562 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1288122003563 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 1288122003564 Dimer interface [polypeptide binding]; other site 1288122003565 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1288122003566 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1288122003567 active site 1288122003568 HIGH motif; other site 1288122003569 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1288122003570 active site 1288122003571 KMSKS motif; other site 1288122003572 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 1288122003573 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1288122003574 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1288122003575 Nucleoside recognition; Region: Gate; pfam07670 1288122003576 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1288122003577 manganese transport protein MntH; Reviewed; Region: PRK00701 1288122003578 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1288122003579 glucokinase; Provisional; Region: glk; PRK00292 1288122003580 glucokinase, proteobacterial type; Region: glk; TIGR00749 1288122003581 secY/secA suppressor protein; Provisional; Region: PRK11467 1288122003582 DsrE/DsrF-like family; Region: DrsE; cl00672 1288122003583 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 1288122003584 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 1288122003585 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1288122003586 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 1288122003587 Ligand binding site; other site 1288122003588 DXD motif; other site 1288122003589 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1288122003590 aspartate racemase; Region: asp_race; TIGR00035 1288122003591 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1288122003592 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 1288122003593 ATP binding site [chemical binding]; other site 1288122003594 substrate interface [chemical binding]; other site 1288122003595 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 1288122003596 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 1288122003597 dimer interface [polypeptide binding]; other site 1288122003598 putative functional site; other site 1288122003599 putative MPT binding site; other site 1288122003600 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 1288122003601 active site 1288122003602 hypothetical protein; Provisional; Region: PRK10835 1288122003603 Predicted membrane protein [Function unknown]; Region: COG2311 1288122003604 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1288122003605 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122003606 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1288122003607 putative active site [active] 1288122003608 malate dehydrogenase; Provisional; Region: PRK13529 1288122003609 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1288122003610 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1288122003611 NAD(P) binding site [chemical binding]; other site 1288122003612 cytidine deaminase; Provisional; Region: PRK09027 1288122003613 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1288122003614 active site 1288122003615 catalytic motif [active] 1288122003616 Zn binding site [ion binding]; other site 1288122003617 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1288122003618 active site 1288122003619 catalytic motif [active] 1288122003620 Zn binding site [ion binding]; other site 1288122003621 hypothetical protein; Provisional; Region: PRK10711 1288122003622 hypothetical protein; Provisional; Region: PRK01821 1288122003623 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1288122003624 exonuclease I; Provisional; Region: sbcB; PRK11779 1288122003625 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1288122003626 active site 1288122003627 catalytic site [active] 1288122003628 substrate binding site [chemical binding]; other site 1288122003629 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1288122003630 Predicted membrane protein [Function unknown]; Region: COG1289 1288122003631 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122003632 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 1288122003633 DEAD_2; Region: DEAD_2; pfam06733 1288122003634 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1288122003635 LPS O-antigen length regulator; Provisional; Region: PRK10381 1288122003636 Chain length determinant protein; Region: Wzz; cl15801 1288122003637 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1288122003638 endonuclease IV; Provisional; Region: PRK01060 1288122003639 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1288122003640 AP (apurinic/apyrimidinic) site pocket; other site 1288122003641 DNA interaction; other site 1288122003642 Metal-binding active site; metal-binding site 1288122003643 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1288122003644 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122003645 Ligand Binding Site [chemical binding]; other site 1288122003646 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1288122003647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122003648 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1288122003649 putative dimerization interface [polypeptide binding]; other site 1288122003650 lysine transporter; Provisional; Region: PRK10836 1288122003651 Peptidase M16C associated; Region: M16C_assoc; pfam08367 1288122003652 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1288122003653 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1288122003654 active site 1288122003655 HIGH motif; other site 1288122003656 KMSKS motif; other site 1288122003657 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1288122003658 tRNA binding surface [nucleotide binding]; other site 1288122003659 anticodon binding site; other site 1288122003660 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1288122003661 dimer interface [polypeptide binding]; other site 1288122003662 putative tRNA-binding site [nucleotide binding]; other site 1288122003663 antiporter inner membrane protein; Provisional; Region: PRK11670 1288122003664 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 1288122003665 Walker A motif; other site 1288122003666 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1288122003667 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 1288122003668 ATP-binding site [chemical binding]; other site 1288122003669 Sugar specificity; other site 1288122003670 Pyrimidine base specificity; other site 1288122003671 EamA-like transporter family; Region: EamA; pfam00892 1288122003672 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1288122003673 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1288122003674 trimer interface [polypeptide binding]; other site 1288122003675 active site 1288122003676 putative assembly protein; Provisional; Region: PRK10833 1288122003677 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1288122003678 C4-dicarboxylate transporter DcuC; Provisional; Region: dcuC; PRK10654 1288122003679 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1288122003680 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1288122003681 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1288122003682 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1288122003683 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1288122003684 active site 1288122003685 O-antigen polysaccharide polymerase Wzy; Region: O-ag_pol_Wzy; pfam14296 1288122003686 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1288122003687 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1288122003688 active site 1288122003689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122003690 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 1288122003691 putative ADP-binding pocket [chemical binding]; other site 1288122003692 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1288122003693 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 1288122003694 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122003695 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122003696 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1288122003697 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1288122003698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122003699 NAD(P) binding site [chemical binding]; other site 1288122003700 active site 1288122003701 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1288122003702 tetramer interface; other site 1288122003703 active site 1288122003704 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1288122003705 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1288122003706 NAD binding site [chemical binding]; other site 1288122003707 homodimer interface [polypeptide binding]; other site 1288122003708 active site 1288122003709 substrate binding site [chemical binding]; other site 1288122003710 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1288122003711 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1288122003712 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1288122003713 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1288122003714 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1288122003715 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1288122003716 putative NAD(P) binding site [chemical binding]; other site 1288122003717 active site 1288122003718 putative substrate binding site [chemical binding]; other site 1288122003719 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 1288122003720 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1288122003721 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1288122003722 putative trimer interface [polypeptide binding]; other site 1288122003723 putative CoA binding site [chemical binding]; other site 1288122003724 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1288122003725 NeuB family; Region: NeuB; pfam03102 1288122003726 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1288122003727 NeuB binding interface [polypeptide binding]; other site 1288122003728 putative substrate binding site [chemical binding]; other site 1288122003729 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1288122003730 ligand binding site; other site 1288122003731 tetramer interface; other site 1288122003732 NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: NnaC_like; cd01841 1288122003733 active site 1288122003734 catalytic triad [active] 1288122003735 oxyanion hole [active] 1288122003736 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1288122003737 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1288122003738 active site 1288122003739 homodimer interface [polypeptide binding]; other site 1288122003740 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1288122003741 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1288122003742 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1288122003743 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1288122003744 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1288122003745 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1288122003746 hypothetical protein; Provisional; Region: PRK05423 1288122003747 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 1288122003748 DgsA anti-repressor MtfA; Provisional; Region: PRK15410 1288122003749 putative metal dependent hydrolase; Provisional; Region: PRK11598 1288122003750 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1288122003751 Sulfatase; Region: Sulfatase; pfam00884 1288122003752 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK12468 1288122003753 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1288122003754 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1288122003755 FHIPEP family; Region: FHIPEP; pfam00771 1288122003756 Flagellar protein FlhE; Region: FlhE; pfam06366 1288122003757 FlgN protein; Region: FlgN; cl09176 1288122003758 anti-sigma28 factor FlgM; Provisional; Region: PRK10810 1288122003759 SAF-like; Region: SAF_2; pfam13144 1288122003760 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1288122003761 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 1288122003762 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 1288122003763 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1288122003764 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 1288122003765 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1288122003766 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1288122003767 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1288122003768 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1288122003769 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1288122003770 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1288122003771 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1288122003772 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1288122003773 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1288122003774 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1288122003775 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1288122003776 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1288122003777 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1288122003778 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1288122003779 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1288122003780 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1288122003781 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1288122003782 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1288122003783 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1288122003784 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1288122003785 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 1288122003786 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 1288122003787 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1288122003788 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1288122003789 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08027 1288122003790 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1288122003791 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1288122003792 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122003793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122003794 homodimer interface [polypeptide binding]; other site 1288122003795 catalytic residue [active] 1288122003796 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1288122003797 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1288122003798 trimer interface [polypeptide binding]; other site 1288122003799 eyelet of channel; other site 1288122003800 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1288122003801 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 1288122003802 putative dimer interface [polypeptide binding]; other site 1288122003803 putative anticodon binding site; other site 1288122003804 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 1288122003805 homodimer interface [polypeptide binding]; other site 1288122003806 motif 1; other site 1288122003807 motif 2; other site 1288122003808 active site 1288122003809 motif 3; other site 1288122003810 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 1288122003811 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 1288122003812 active site 1288122003813 aminopeptidase N; Provisional; Region: pepN; PRK14015 1288122003814 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1288122003815 active site 1288122003816 Zn binding site [ion binding]; other site 1288122003817 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1288122003818 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1288122003819 dimer interface [polypeptide binding]; other site 1288122003820 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 1288122003821 catalytic site [active] 1288122003822 BNR repeat-like domain; Region: BNR_2; pfam13088 1288122003823 Asp-box motif; other site 1288122003824 Autotransporter beta-domain; Region: Autotransporter; smart00869 1288122003825 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1288122003826 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 1288122003827 quinone interaction residues [chemical binding]; other site 1288122003828 active site 1288122003829 catalytic residues [active] 1288122003830 FMN binding site [chemical binding]; other site 1288122003831 substrate binding site [chemical binding]; other site 1288122003832 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1288122003833 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1288122003834 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122003835 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122003836 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122003837 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1288122003838 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122003839 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122003840 Ion channel; Region: Ion_trans_2; pfam07885 1288122003841 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1288122003842 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1288122003843 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122003844 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122003845 S-adenosylmethionine binding site [chemical binding]; other site 1288122003846 ABC transporter ATPase component; Reviewed; Region: PRK11147 1288122003847 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122003848 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122003849 ABC transporter; Region: ABC_tran_2; pfam12848 1288122003850 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122003851 paraquat-inducible membrane protein A; Provisional; Region: PRK15103 1288122003852 Paraquat-inducible protein A; Region: PqiA; pfam04403 1288122003853 Paraquat-inducible protein A; Region: PqiA; pfam04403 1288122003854 paraquat-inducible protein B; Provisional; Region: PRK10807 1288122003855 mce related protein; Region: MCE; pfam02470 1288122003856 mce related protein; Region: MCE; pfam02470 1288122003857 mce related protein; Region: MCE; pfam02470 1288122003858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1288122003859 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1288122003860 ribosome modulation factor; Provisional; Region: PRK14563 1288122003861 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1288122003862 active site 1 [active] 1288122003863 dimer interface [polypeptide binding]; other site 1288122003864 active site 2 [active] 1288122003865 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 1288122003866 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1288122003867 Ter macrodomain organizer matS-binding protein; Provisional; Region: PRK05097 1288122003868 outer membrane protein A; Reviewed; Region: PRK10808 1288122003869 OmpA-like transmembrane domain; Region: OmpA_membrane; pfam01389 1288122003870 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122003871 ligand binding site [chemical binding]; other site 1288122003872 SOS cell division inhibitor; Provisional; Region: PRK10595 1288122003873 TfoX N-terminal domain; Region: TfoX_N; pfam04993 1288122003874 TfoX C-terminal domain; Region: TfoX_C; pfam04994 1288122003875 TIGR01666 family membrane protein; Region: YCCS 1288122003876 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1288122003877 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122003878 Predicted membrane protein [Function unknown]; Region: COG3304 1288122003879 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1288122003880 Domain of unknown function (DUF307); Region: DUF307; pfam03733 1288122003881 DNA helicase IV; Provisional; Region: helD; PRK11054 1288122003882 DNA helicase IV / RNA helicase N terminal; Region: Nucleolin_N; pfam12462 1288122003883 Part of AAA domain; Region: AAA_19; pfam13245 1288122003884 Family description; Region: UvrD_C_2; pfam13538 1288122003885 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1288122003886 active site 1288122003887 dimer interfaces [polypeptide binding]; other site 1288122003888 catalytic residues [active] 1288122003889 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 1288122003890 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 1288122003891 heat shock protein HspQ; Provisional; Region: PRK14129 1288122003892 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 1288122003893 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 1288122003894 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1288122003895 putative RNA binding site [nucleotide binding]; other site 1288122003896 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122003897 S-adenosylmethionine binding site [chemical binding]; other site 1288122003898 acylphosphatase; Provisional; Region: PRK14426 1288122003899 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1288122003900 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1288122003901 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 1288122003902 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1288122003903 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 1288122003904 active site 1288122003905 catalytic triad [active] 1288122003906 oxyanion hole [active] 1288122003907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122003908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122003909 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1288122003910 dimerization interface [polypeptide binding]; other site 1288122003911 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 1288122003912 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1288122003913 active site 1288122003914 The Resistance to Homoserine/Threonine (RhtB) Family protein; Region: 2A76; TIGR00949 1288122003915 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122003916 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1288122003917 putative substrate translocation pore; other site 1288122003918 palmytilated EEV membrane glycoprotein; Provisional; Region: PHA03003 1288122003919 Putative catalytic domain, repeat 1, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_1; cd09106 1288122003920 putative active site [active] 1288122003921 putative catalytic site [active] 1288122003922 Putative catalytic domain, repeat 2, of vertebrate phospholipases, PLD3, PLD4 and PLD5, viral envelope proteins K4 and p37, and similar proteins; Region: PLDc_vPLD3_4_5_like_2; cd09107 1288122003923 putative active site [active] 1288122003924 putative catalytic site [active] 1288122003925 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1288122003926 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 1288122003927 inhibitor-cofactor binding pocket; inhibition site 1288122003928 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122003929 catalytic residue [active] 1288122003930 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1288122003931 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1288122003932 Ligand binding site; other site 1288122003933 Putative Catalytic site; other site 1288122003934 DXD motif; other site 1288122003935 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated; Region: PRK08125 1288122003936 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 1288122003937 active site 1288122003938 substrate binding site [chemical binding]; other site 1288122003939 cosubstrate binding site; other site 1288122003940 catalytic site [active] 1288122003941 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 1288122003942 active site 1288122003943 hexamer interface [polypeptide binding]; other site 1288122003944 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 1288122003945 NAD binding site [chemical binding]; other site 1288122003946 substrate binding site [chemical binding]; other site 1288122003947 active site 1288122003948 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 1288122003949 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 1288122003950 4-amino-4-deoxy-L-arabinose transferase; Provisional; Region: arnT; PRK13279 1288122003951 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1288122003952 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 1288122003953 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1288122003954 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1288122003955 trimer interface [polypeptide binding]; other site 1288122003956 active site 1288122003957 substrate binding site [chemical binding]; other site 1288122003958 CoA binding site [chemical binding]; other site 1288122003959 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 1288122003960 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 1288122003961 MOSC domain; Region: MOSC; pfam03473 1288122003962 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1288122003963 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1288122003964 FAD binding pocket [chemical binding]; other site 1288122003965 conserved FAD binding motif [chemical binding]; other site 1288122003966 phosphate binding motif [ion binding]; other site 1288122003967 beta-alpha-beta structure motif; other site 1288122003968 NAD binding pocket [chemical binding]; other site 1288122003969 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122003970 catalytic loop [active] 1288122003971 iron binding site [ion binding]; other site 1288122003972 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122003973 DNA-binding site [nucleotide binding]; DNA binding site 1288122003974 RNA-binding motif; other site 1288122003975 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122003976 DNA-binding site [nucleotide binding]; DNA binding site 1288122003977 RNA-binding motif; other site 1288122003978 potential frameshift: common BLAST hit: gi|269138662|ref|YP_003295363.1| integral membrane protein 1288122003979 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1288122003980 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1288122003981 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1288122003982 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1288122003983 catalytic core [active] 1288122003984 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1288122003985 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1288122003986 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1288122003987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122003988 active site 1288122003989 phosphorylation site [posttranslational modification] 1288122003990 intermolecular recognition site; other site 1288122003991 dimerization interface [polypeptide binding]; other site 1288122003992 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122003993 Walker A motif; other site 1288122003994 ATP binding site [chemical binding]; other site 1288122003995 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122003996 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]; Region: COG4192 1288122003997 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122003998 dimerization interface [polypeptide binding]; other site 1288122003999 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122004000 dimer interface [polypeptide binding]; other site 1288122004001 phosphorylation site [posttranslational modification] 1288122004002 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122004003 ATP binding site [chemical binding]; other site 1288122004004 Mg2+ binding site [ion binding]; other site 1288122004005 G-X-G motif; other site 1288122004006 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1288122004007 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1288122004008 Sugar phosphate permease [Carbohydrate transport and metabolism]; Region: UhpC; COG2271 1288122004009 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004010 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004011 Isochorismatase family; Region: Isochorismatase; pfam00857 1288122004012 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1288122004013 catalytic triad [active] 1288122004014 conserved cis-peptide bond; other site 1288122004015 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1288122004016 Sulfatase; Region: Sulfatase; pfam00884 1288122004017 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1288122004018 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1288122004019 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1288122004020 ferric transporter ATP-binding subunit; Provisional; Region: fbpC; PRK11432 1288122004021 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1288122004022 Walker A/P-loop; other site 1288122004023 ATP binding site [chemical binding]; other site 1288122004024 Q-loop/lid; other site 1288122004025 ABC transporter signature motif; other site 1288122004026 Walker B; other site 1288122004027 D-loop; other site 1288122004028 H-loop/switch region; other site 1288122004029 TOBE domain; Region: TOBE_2; pfam08402 1288122004030 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1288122004031 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004032 dimer interface [polypeptide binding]; other site 1288122004033 conserved gate region; other site 1288122004034 putative PBP binding loops; other site 1288122004035 ABC-ATPase subunit interface; other site 1288122004036 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004037 dimer interface [polypeptide binding]; other site 1288122004038 conserved gate region; other site 1288122004039 putative PBP binding loops; other site 1288122004040 ABC-ATPase subunit interface; other site 1288122004041 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1288122004042 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1288122004043 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004044 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1288122004045 putative substrate translocation pore; other site 1288122004046 Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]; Region: UhpB; COG3851 1288122004047 MASE1; Region: MASE1; pfam05231 1288122004048 Histidine kinase; Region: HisKA_3; pfam07730 1288122004049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122004050 ATP binding site [chemical binding]; other site 1288122004051 Mg2+ binding site [ion binding]; other site 1288122004052 G-X-G motif; other site 1288122004053 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1288122004054 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004055 active site 1288122004056 phosphorylation site [posttranslational modification] 1288122004057 intermolecular recognition site; other site 1288122004058 dimerization interface [polypeptide binding]; other site 1288122004059 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122004060 DNA binding residues [nucleotide binding] 1288122004061 dimerization interface [polypeptide binding]; other site 1288122004062 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1288122004063 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cl17315 1288122004064 dimerization interface [polypeptide binding]; other site 1288122004065 DNA binding residues [nucleotide binding] 1288122004066 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122004067 Ligand Binding Site [chemical binding]; other site 1288122004068 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 1288122004069 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 1288122004070 dimer interface [polypeptide binding]; other site 1288122004071 active site 1288122004072 metal binding site [ion binding]; metal-binding site 1288122004073 transcriptional activator FlhD; Provisional; Region: PRK02909 1288122004074 transcriptional activator FlhC; Provisional; Region: PRK12722 1288122004075 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1288122004076 flagellar motor protein MotA; Validated; Region: PRK09110 1288122004077 flagellar motor protein MotB; Validated; Region: motB; PRK09041 1288122004078 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1288122004079 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122004080 ligand binding site [chemical binding]; other site 1288122004081 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1288122004082 putative binding surface; other site 1288122004083 active site 1288122004084 CheY binding; Region: CheY-binding; pfam09078 1288122004085 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1288122004086 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122004087 ATP binding site [chemical binding]; other site 1288122004088 Mg2+ binding site [ion binding]; other site 1288122004089 G-X-G motif; other site 1288122004090 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 1288122004091 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 1288122004092 putative CheA interaction surface; other site 1288122004093 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1288122004094 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1288122004095 dimer interface [polypeptide binding]; other site 1288122004096 ligand binding site [chemical binding]; other site 1288122004097 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122004098 dimerization interface [polypeptide binding]; other site 1288122004099 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122004100 dimer interface [polypeptide binding]; other site 1288122004101 putative CheW interface [polypeptide binding]; other site 1288122004102 methyl-accepting protein IV; Provisional; Region: PRK09793 1288122004103 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1288122004104 dimer interface [polypeptide binding]; other site 1288122004105 ligand binding site [chemical binding]; other site 1288122004106 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122004107 dimerization interface [polypeptide binding]; other site 1288122004108 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122004109 dimer interface [polypeptide binding]; other site 1288122004110 putative CheW interface [polypeptide binding]; other site 1288122004111 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 1288122004112 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1288122004113 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004114 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1288122004115 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004116 active site 1288122004117 phosphorylation site [posttranslational modification] 1288122004118 intermolecular recognition site; other site 1288122004119 dimerization interface [polypeptide binding]; other site 1288122004120 CheB methylesterase; Region: CheB_methylest; pfam01339 1288122004121 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1288122004122 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004123 active site 1288122004124 phosphorylation site [posttranslational modification] 1288122004125 intermolecular recognition site; other site 1288122004126 dimerization interface [polypeptide binding]; other site 1288122004127 chemotaxis regulator CheZ; Provisional; Region: PRK11166 1288122004128 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1288122004129 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 1288122004130 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1288122004131 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1288122004132 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1288122004133 Protein of unknown function (DUF1375); Region: DUF1375; cl11456 1288122004134 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1288122004135 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 1288122004136 putative metal binding site [ion binding]; other site 1288122004137 dimer interface [polypeptide binding]; other site 1288122004138 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1288122004139 DNA-binding transcriptional activator TdcA; Provisional; Region: PRK10341 1288122004140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122004141 The C-terminal substrate binding domain of LysR-type transcriptional regulator TdcA, which is involved in the degradation of L-serine and L-threonine, contains the type 2 periplasmic binding fold; Region: PBP2_TdcA; cd08418 1288122004142 putative substrate binding pocket [chemical binding]; other site 1288122004143 putative dimerization interface [polypeptide binding]; other site 1288122004144 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 1288122004145 active site 1288122004146 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1288122004147 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1288122004148 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1288122004149 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 1288122004150 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 1288122004151 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1288122004152 isoaspartyl dipeptidase; Provisional; Region: PRK10657 1288122004153 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1288122004154 active site 1288122004155 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122004156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122004157 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 1288122004158 dimerization interface [polypeptide binding]; other site 1288122004159 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1288122004160 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1288122004161 mercuric reductase; Validated; Region: PRK06370 1288122004162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1288122004163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122004164 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122004165 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1288122004166 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 1288122004167 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1288122004168 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 1288122004169 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 1288122004170 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1288122004171 heme binding pocket [chemical binding]; other site 1288122004172 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3122 1288122004173 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1288122004174 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1288122004175 ATP binding site [chemical binding]; other site 1288122004176 Mg++ binding site [ion binding]; other site 1288122004177 motif III; other site 1288122004178 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122004179 nucleotide binding region [chemical binding]; other site 1288122004180 ATP-binding site [chemical binding]; other site 1288122004181 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 1288122004182 putative RNA binding site [nucleotide binding]; other site 1288122004183 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 1288122004184 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 1288122004185 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1288122004186 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122004187 Walker A/P-loop; other site 1288122004188 ATP binding site [chemical binding]; other site 1288122004189 Q-loop/lid; other site 1288122004190 ABC transporter signature motif; other site 1288122004191 Walker B; other site 1288122004192 D-loop; other site 1288122004193 H-loop/switch region; other site 1288122004194 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1288122004195 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122004196 Walker A/P-loop; other site 1288122004197 ATP binding site [chemical binding]; other site 1288122004198 Q-loop/lid; other site 1288122004199 ABC transporter signature motif; other site 1288122004200 Walker B; other site 1288122004201 D-loop; other site 1288122004202 H-loop/switch region; other site 1288122004203 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1288122004204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004205 dimer interface [polypeptide binding]; other site 1288122004206 conserved gate region; other site 1288122004207 putative PBP binding loops; other site 1288122004208 ABC-ATPase subunit interface; other site 1288122004209 nickel transporter permease NikB; Provisional; Region: PRK10352 1288122004210 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004211 dimer interface [polypeptide binding]; other site 1288122004212 conserved gate region; other site 1288122004213 putative PBP binding loops; other site 1288122004214 ABC-ATPase subunit interface; other site 1288122004215 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1288122004216 substrate binding site [chemical binding]; other site 1288122004217 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1288122004218 transcriptional regulator NanR; Provisional; Region: PRK03837 1288122004219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122004220 DNA-binding site [nucleotide binding]; DNA binding site 1288122004221 FCD domain; Region: FCD; pfam07729 1288122004222 N-acetylneuraminate lyase; Provisional; Region: PRK04147 1288122004223 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 1288122004224 inhibitor site; inhibition site 1288122004225 active site 1288122004226 dimer interface [polypeptide binding]; other site 1288122004227 catalytic residue [active] 1288122004228 putative sialic acid transporter; Provisional; Region: PRK03893 1288122004229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004230 putative substrate translocation pore; other site 1288122004231 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1288122004232 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122004233 nucleotide binding site [chemical binding]; other site 1288122004234 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1288122004235 transcriptional regulator BetI; Validated; Region: PRK00767 1288122004236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122004237 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1288122004238 GTP-binding protein YchF; Reviewed; Region: PRK09601 1288122004239 YchF GTPase; Region: YchF; cd01900 1288122004240 G1 box; other site 1288122004241 GTP/Mg2+ binding site [chemical binding]; other site 1288122004242 Switch I region; other site 1288122004243 G2 box; other site 1288122004244 Switch II region; other site 1288122004245 G3 box; other site 1288122004246 G4 box; other site 1288122004247 G5 box; other site 1288122004248 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 1288122004249 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 1288122004250 putative active site [active] 1288122004251 catalytic residue [active] 1288122004252 hypothetical protein; Provisional; Region: PRK10692 1288122004253 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1288122004254 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1288122004255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122004256 active site 1288122004257 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1288122004258 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1288122004259 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1288122004260 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1288122004261 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1288122004262 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1288122004263 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1288122004264 tRNA; other site 1288122004265 putative tRNA binding site [nucleotide binding]; other site 1288122004266 putative NADP binding site [chemical binding]; other site 1288122004267 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1288122004268 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1288122004269 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1288122004270 RF-1 domain; Region: RF-1; pfam00472 1288122004271 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 1288122004272 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004273 hypothetical protein; Provisional; Region: PRK10941 1288122004274 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 1288122004275 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1288122004276 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1288122004277 putative transporter; Provisional; Region: PRK11660 1288122004278 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1288122004279 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1288122004280 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1288122004281 hypothetical protein; Provisional; Region: PRK02487 1288122004282 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1288122004283 hypothetical protein; Provisional; Region: PRK11622 1288122004284 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1288122004285 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004286 POT family; Region: PTR2; cl17359 1288122004287 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 1288122004288 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1288122004289 putative ligand binding site [chemical binding]; other site 1288122004290 NAD binding site [chemical binding]; other site 1288122004291 dimerization interface [polypeptide binding]; other site 1288122004292 catalytic site [active] 1288122004293 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122004294 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122004295 metal binding site [ion binding]; metal-binding site 1288122004296 active site 1288122004297 I-site; other site 1288122004298 putative hydrolase; Validated; Region: PRK09248 1288122004299 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 1288122004300 active site 1288122004301 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1288122004302 lipoprotein; Provisional; Region: PRK10598 1288122004303 multidrug resistance protein MdtH; Provisional; Region: PRK11646 1288122004304 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004305 ribosomal-protein-S5-alanine N-acetyltransferase; Provisional; Region: PRK10809 1288122004306 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1288122004307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3132 1288122004308 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1288122004309 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1288122004310 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1288122004311 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1288122004312 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1288122004313 active site 1288122004314 HIGH motif; other site 1288122004315 KMSK motif region; other site 1288122004316 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1288122004317 tRNA binding surface [nucleotide binding]; other site 1288122004318 anticodon binding site; other site 1288122004319 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 1288122004320 putative metal binding site [ion binding]; other site 1288122004321 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 1288122004322 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122004323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122004324 homodimer interface [polypeptide binding]; other site 1288122004325 catalytic residue [active] 1288122004326 copper homeostasis protein CutC; Provisional; Region: PRK11572 1288122004327 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1288122004328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004329 S-adenosylmethionine binding site [chemical binding]; other site 1288122004330 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004331 S-adenosylmethionine binding site [chemical binding]; other site 1288122004332 phenylalanine transporter; Provisional; Region: PRK10249 1288122004333 Uncharacterized relative of glutathione S-transferase, MAPEG superfamily [General function prediction only]; Region: COG3788 1288122004334 hypothetical protein; Provisional; Region: PRK10302 1288122004335 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 1288122004336 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1288122004337 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 1288122004338 dimer interface [polypeptide binding]; other site 1288122004339 anticodon binding site; other site 1288122004340 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 1288122004341 homodimer interface [polypeptide binding]; other site 1288122004342 motif 1; other site 1288122004343 active site 1288122004344 motif 2; other site 1288122004345 GAD domain; Region: GAD; pfam02938 1288122004346 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 1288122004347 active site 1288122004348 motif 3; other site 1288122004349 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 1288122004350 nudix motif; other site 1288122004351 hypothetical protein; Validated; Region: PRK00110 1288122004352 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 1288122004353 active site 1288122004354 putative DNA-binding cleft [nucleotide binding]; other site 1288122004355 dimer interface [polypeptide binding]; other site 1288122004356 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1288122004357 RuvA N terminal domain; Region: RuvA_N; pfam01330 1288122004358 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1288122004359 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122004360 Walker A motif; other site 1288122004361 ATP binding site [chemical binding]; other site 1288122004362 Walker B motif; other site 1288122004363 arginine finger; other site 1288122004364 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1288122004365 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1288122004366 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1288122004367 ABC-ATPase subunit interface; other site 1288122004368 dimer interface [polypeptide binding]; other site 1288122004369 putative PBP binding regions; other site 1288122004370 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 1288122004371 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1288122004372 high-affinity zinc transporter periplasmic component; Reviewed; Region: znuA; PRK09545 1288122004373 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1288122004374 metal binding site [ion binding]; metal-binding site 1288122004375 putative peptidase; Provisional; Region: PRK11649 1288122004376 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 1288122004377 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122004378 Peptidase family M23; Region: Peptidase_M23; pfam01551 1288122004379 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1288122004380 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1288122004381 putative acyl-acceptor binding pocket; other site 1288122004382 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1288122004383 pyruvate kinase; Provisional; Region: PRK05826 1288122004384 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 1288122004385 domain interfaces; other site 1288122004386 active site 1288122004387 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 1288122004388 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1288122004389 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1288122004390 putative active site [active] 1288122004391 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1288122004392 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1288122004393 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1288122004394 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1288122004395 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1288122004396 putative active site [active] 1288122004397 phosphogluconate dehydratase; Validated; Region: PRK09054 1288122004398 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1288122004399 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 1288122004400 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1288122004401 active site 1288122004402 intersubunit interface [polypeptide binding]; other site 1288122004403 catalytic residue [active] 1288122004404 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1288122004405 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 1288122004406 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cl10015 1288122004407 homotrimer interaction site [polypeptide binding]; other site 1288122004408 putative active site [active] 1288122004409 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1288122004410 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1288122004411 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1288122004412 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1288122004413 Glycoprotease family; Region: Peptidase_M22; pfam00814 1288122004414 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1288122004415 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1288122004416 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1288122004417 acyl-activating enzyme (AAE) consensus motif; other site 1288122004418 putative AMP binding site [chemical binding]; other site 1288122004419 putative active site [active] 1288122004420 putative CoA binding site [chemical binding]; other site 1288122004421 ribonuclease D; Provisional; Region: PRK10829 1288122004422 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1288122004423 catalytic site [active] 1288122004424 putative active site [active] 1288122004425 putative substrate binding site [chemical binding]; other site 1288122004426 HRDC domain; Region: HRDC; pfam00570 1288122004427 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1288122004428 cell division inhibitor MinD; Provisional; Region: PRK10818 1288122004429 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 1288122004430 Switch I; other site 1288122004431 Switch II; other site 1288122004432 septum formation inhibitor; Reviewed; Region: minC; PRK03511 1288122004433 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 1288122004434 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1288122004435 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3100 1288122004436 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 1288122004437 hypothetical protein; Provisional; Region: PRK10691 1288122004438 hypothetical protein; Provisional; Region: PRK05170 1288122004439 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122004440 Ligand Binding Site [chemical binding]; other site 1288122004441 disulfide bond formation protein B; Provisional; Region: PRK01749 1288122004442 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 1288122004443 fatty acid metabolism regulator; Provisional; Region: PRK04984 1288122004444 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122004445 DNA-binding site [nucleotide binding]; DNA binding site 1288122004446 FadR C-terminal domain; Region: FadR_C; pfam07840 1288122004447 SpoVR family protein; Provisional; Region: PRK11767 1288122004448 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 1288122004449 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1288122004450 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122004451 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1288122004452 hypothetical protein; Provisional; Region: PRK10174 1288122004453 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1288122004454 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1288122004455 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1288122004456 hypothetical protein; Provisional; Region: PRK05325 1288122004457 PrkA family serine protein kinase; Provisional; Region: PRK15455 1288122004458 AAA ATPase domain; Region: AAA_16; pfam13191 1288122004459 Walker A motif; other site 1288122004460 ATP binding site [chemical binding]; other site 1288122004461 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 1288122004462 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 1288122004463 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1288122004464 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1288122004465 N-terminal plug; other site 1288122004466 ligand-binding site [chemical binding]; other site 1288122004467 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 1288122004468 active site 1288122004469 phosphate binding residues; other site 1288122004470 catalytic residues [active] 1288122004471 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 1288122004472 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1288122004473 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1288122004474 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1288122004475 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1288122004476 Isochorismatase family; Region: Isochorismatase; pfam00857 1288122004477 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1288122004478 catalytic triad [active] 1288122004479 metal binding site [ion binding]; metal-binding site 1288122004480 conserved cis-peptide bond; other site 1288122004481 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1288122004482 active site 1288122004483 homodimer interface [polypeptide binding]; other site 1288122004484 protease 4; Provisional; Region: PRK10949 1288122004485 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1288122004486 oligomer interface [polypeptide binding]; other site 1288122004487 tandem repeat interface [polypeptide binding]; other site 1288122004488 active site residues [active] 1288122004489 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1288122004490 tandem repeat interface [polypeptide binding]; other site 1288122004491 oligomer interface [polypeptide binding]; other site 1288122004492 active site residues [active] 1288122004493 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 1288122004494 putative FMN binding site [chemical binding]; other site 1288122004495 selenophosphate synthetase; Provisional; Region: PRK00943 1288122004496 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 1288122004497 dimerization interface [polypeptide binding]; other site 1288122004498 putative ATP binding site [chemical binding]; other site 1288122004499 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 1288122004500 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1288122004501 active site residue [active] 1288122004502 DNA topoisomerase III; Provisional; Region: PRK07726 1288122004503 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1288122004504 active site 1288122004505 putative interdomain interaction site [polypeptide binding]; other site 1288122004506 putative metal-binding site [ion binding]; other site 1288122004507 putative nucleotide binding site [chemical binding]; other site 1288122004508 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1288122004509 domain I; other site 1288122004510 DNA binding groove [nucleotide binding] 1288122004511 phosphate binding site [ion binding]; other site 1288122004512 domain II; other site 1288122004513 domain III; other site 1288122004514 nucleotide binding site [chemical binding]; other site 1288122004515 catalytic site [active] 1288122004516 domain IV; other site 1288122004517 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 1288122004518 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1288122004519 active site 1288122004520 8-oxo-dGMP binding site [chemical binding]; other site 1288122004521 nudix motif; other site 1288122004522 metal binding site [ion binding]; metal-binding site 1288122004523 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1288122004524 putative catalytic site [active] 1288122004525 putative phosphate binding site [ion binding]; other site 1288122004526 active site 1288122004527 metal binding site A [ion binding]; metal-binding site 1288122004528 DNA binding site [nucleotide binding] 1288122004529 putative AP binding site [nucleotide binding]; other site 1288122004530 putative metal binding site B [ion binding]; other site 1288122004531 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1288122004532 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 1288122004533 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1288122004534 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1288122004535 putative active site [active] 1288122004536 putative substrate binding site [chemical binding]; other site 1288122004537 putative cosubstrate binding site; other site 1288122004538 catalytic site [active] 1288122004539 hypothetical protein; Provisional; Region: PRK01617 1288122004540 SEC-C motif; Region: SEC-C; pfam02810 1288122004541 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004542 active site 1288122004543 response regulator of RpoS; Provisional; Region: PRK10693 1288122004544 phosphorylation site [posttranslational modification] 1288122004545 intermolecular recognition site; other site 1288122004546 dimerization interface [polypeptide binding]; other site 1288122004547 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1288122004548 tetramer interface; other site 1288122004549 active site 1288122004550 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 1288122004551 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1288122004552 thymidine kinase; Provisional; Region: PRK04296 1288122004553 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1288122004554 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1288122004555 putative catalytic cysteine [active] 1288122004556 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1288122004557 putative active site [active] 1288122004558 metal binding site [ion binding]; metal-binding site 1288122004559 hypothetical protein; Provisional; Region: PRK11111 1288122004560 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1288122004561 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1288122004562 peptide binding site [polypeptide binding]; other site 1288122004563 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1288122004564 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004565 dimer interface [polypeptide binding]; other site 1288122004566 conserved gate region; other site 1288122004567 putative PBP binding loops; other site 1288122004568 ABC-ATPase subunit interface; other site 1288122004569 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 1288122004570 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1288122004571 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004572 dimer interface [polypeptide binding]; other site 1288122004573 conserved gate region; other site 1288122004574 ABC-ATPase subunit interface; other site 1288122004575 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 1288122004576 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122004577 Walker A/P-loop; other site 1288122004578 ATP binding site [chemical binding]; other site 1288122004579 Q-loop/lid; other site 1288122004580 ABC transporter signature motif; other site 1288122004581 Walker B; other site 1288122004582 D-loop; other site 1288122004583 H-loop/switch region; other site 1288122004584 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1288122004585 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 1288122004586 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122004587 Walker A/P-loop; other site 1288122004588 ATP binding site [chemical binding]; other site 1288122004589 Q-loop/lid; other site 1288122004590 ABC transporter signature motif; other site 1288122004591 Walker B; other site 1288122004592 D-loop; other site 1288122004593 H-loop/switch region; other site 1288122004594 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1288122004595 dsDNA-mimic protein; Reviewed; Region: PRK05094 1288122004596 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1288122004597 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1288122004598 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 1288122004599 putative active site [active] 1288122004600 catalytic site [active] 1288122004601 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 1288122004602 putative active site [active] 1288122004603 catalytic site [active] 1288122004604 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1288122004605 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1288122004606 dimerization interface [polypeptide binding]; other site 1288122004607 DPS ferroxidase diiron center [ion binding]; other site 1288122004608 ion pore; other site 1288122004609 YciI-like protein; Reviewed; Region: PRK11370 1288122004610 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1288122004611 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1288122004612 intracellular septation protein A; Reviewed; Region: PRK00259 1288122004613 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1288122004614 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1288122004615 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1288122004616 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1288122004617 Domain of unknown function (DUF1919); Region: DUF1919; cl01628 1288122004618 hypothetical protein; Provisional; Region: PRK02868 1288122004619 outer membrane protein W; Provisional; Region: PRK10959 1288122004620 BON domain; Region: BON; pfam04972 1288122004621 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 1288122004622 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 1288122004623 substrate binding site [chemical binding]; other site 1288122004624 active site 1288122004625 catalytic residues [active] 1288122004626 heterodimer interface [polypeptide binding]; other site 1288122004627 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1288122004628 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 1288122004629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122004630 catalytic residue [active] 1288122004631 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1288122004632 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 1288122004633 active site 1288122004634 ribulose/triose binding site [chemical binding]; other site 1288122004635 phosphate binding site [ion binding]; other site 1288122004636 substrate (anthranilate) binding pocket [chemical binding]; other site 1288122004637 product (indole) binding pocket [chemical binding]; other site 1288122004638 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 1288122004639 active site 1288122004640 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1288122004641 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1288122004642 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1288122004643 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1288122004644 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1288122004645 glutamine binding [chemical binding]; other site 1288122004646 catalytic triad [active] 1288122004647 anthranilate synthase component I; Provisional; Region: PRK13564 1288122004648 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1288122004649 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1288122004650 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1288122004651 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1288122004652 active site 1288122004653 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1288122004654 hypothetical protein; Provisional; Region: PRK11630 1288122004655 Protein of unknown function (DUF2766); Region: DUF2766; pfam10964 1288122004656 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004657 dimer interface [polypeptide binding]; other site 1288122004658 conserved gate region; other site 1288122004659 putative PBP binding loops; other site 1288122004660 ABC-ATPase subunit interface; other site 1288122004661 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1288122004662 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122004663 substrate binding pocket [chemical binding]; other site 1288122004664 membrane-bound complex binding site; other site 1288122004665 hinge residues; other site 1288122004666 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1288122004667 transmembrane helices; other site 1288122004668 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122004669 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122004670 DNA polymerase III, theta subunit; Region: DNA_pol3_theta; pfam06440 1288122004671 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1288122004672 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122004673 RNA binding surface [nucleotide binding]; other site 1288122004674 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1288122004675 probable active site [active] 1288122004676 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1288122004677 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1288122004678 catalytic core [active] 1288122004679 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1288122004680 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1288122004681 Walker A motif; other site 1288122004682 homodimer interface [polypeptide binding]; other site 1288122004683 ATP binding site [chemical binding]; other site 1288122004684 hydroxycobalamin binding site [chemical binding]; other site 1288122004685 Walker B motif; other site 1288122004686 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1288122004687 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122004688 NAD(P) binding site [chemical binding]; other site 1288122004689 active site 1288122004690 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1288122004691 putative inner membrane peptidase; Provisional; Region: PRK11778 1288122004692 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1288122004693 tandem repeat interface [polypeptide binding]; other site 1288122004694 oligomer interface [polypeptide binding]; other site 1288122004695 active site residues [active] 1288122004696 hypothetical protein; Provisional; Region: PRK11037 1288122004697 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1288122004698 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 1288122004699 active site 1288122004700 interdomain interaction site; other site 1288122004701 putative metal-binding site [ion binding]; other site 1288122004702 nucleotide binding site [chemical binding]; other site 1288122004703 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 1288122004704 domain I; other site 1288122004705 DNA binding groove [nucleotide binding] 1288122004706 phosphate binding site [ion binding]; other site 1288122004707 domain II; other site 1288122004708 domain III; other site 1288122004709 nucleotide binding site [chemical binding]; other site 1288122004710 catalytic site [active] 1288122004711 domain IV; other site 1288122004712 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1288122004713 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1288122004714 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1288122004715 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1288122004716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122004717 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1288122004718 substrate binding site [chemical binding]; other site 1288122004719 dimerization interface [polypeptide binding]; other site 1288122004720 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122004721 DNA-binding site [nucleotide binding]; DNA binding site 1288122004722 RNA-binding motif; other site 1288122004723 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1288122004724 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004725 S-adenosylmethionine binding site [chemical binding]; other site 1288122004726 hypothetical protein; Provisional; Region: PRK02913 1288122004727 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1288122004728 PTS system mannose-specific transporter subunit IIC; Provisional; Region: PRK15065 1288122004729 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1288122004730 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1288122004731 active pocket/dimerization site; other site 1288122004732 active site 1288122004733 phosphorylation site [posttranslational modification] 1288122004734 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1288122004735 active site 1288122004736 phosphorylation site [posttranslational modification] 1288122004737 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1288122004738 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1288122004739 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1288122004740 Transporter associated domain; Region: CorC_HlyC; smart01091 1288122004741 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1288122004742 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1288122004743 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122004744 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 1288122004745 multidrug efflux protein; Reviewed; Region: PRK01766 1288122004746 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1288122004747 cation binding site [ion binding]; other site 1288122004748 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1288122004749 Lumazine binding domain; Region: Lum_binding; pfam00677 1288122004750 Lumazine binding domain; Region: Lum_binding; pfam00677 1288122004751 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004752 DNA-binding transcriptional regulator KdgR; Provisional; Region: PRK15090 1288122004753 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1288122004754 Bacterial transcriptional regulator; Region: IclR; pfam01614 1288122004755 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 1288122004756 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1288122004757 inner membrane protein; Provisional; Region: PRK11648 1288122004758 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 1288122004759 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122004760 motif II; other site 1288122004761 YniB-like protein; Region: YniB; pfam14002 1288122004762 Phosphotransferase enzyme family; Region: APH; pfam01636 1288122004763 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1288122004764 active site 1288122004765 ATP binding site [chemical binding]; other site 1288122004766 hypothetical protein; Provisional; Region: PRK10593 1288122004767 Protein of unknown function (DUF2622); Region: DUF2622; pfam11080 1288122004768 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 1288122004769 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122004770 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122004771 catalytic residue [active] 1288122004772 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1288122004773 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 1288122004774 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122004775 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1288122004776 Walker A/P-loop; other site 1288122004777 ATP binding site [chemical binding]; other site 1288122004778 Q-loop/lid; other site 1288122004779 ABC transporter signature motif; other site 1288122004780 Walker B; other site 1288122004781 D-loop; other site 1288122004782 H-loop/switch region; other site 1288122004783 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1288122004784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122004785 Walker A/P-loop; other site 1288122004786 ATP binding site [chemical binding]; other site 1288122004787 Q-loop/lid; other site 1288122004788 ABC transporter signature motif; other site 1288122004789 Walker B; other site 1288122004790 D-loop; other site 1288122004791 H-loop/switch region; other site 1288122004792 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1288122004793 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004794 putative PBP binding loops; other site 1288122004795 ABC-ATPase subunit interface; other site 1288122004796 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1288122004797 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122004798 dimer interface [polypeptide binding]; other site 1288122004799 conserved gate region; other site 1288122004800 putative PBP binding loops; other site 1288122004801 ABC-ATPase subunit interface; other site 1288122004802 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_19; cd08518 1288122004803 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1288122004804 Protein of unknown function (DUF805); Region: DUF805; pfam05656 1288122004805 penicillin-binding protein 2; Provisional; Region: PRK10795 1288122004806 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1288122004807 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1288122004808 Protein of unknown function (DUF2566); Region: DUF2566; pfam10753 1288122004809 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122004810 Ligand Binding Site [chemical binding]; other site 1288122004811 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 1288122004812 Beta/Gamma crystallin; Region: Crystall; cl02528 1288122004813 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1288122004814 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1288122004815 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1288122004816 dimer interface [polypeptide binding]; other site 1288122004817 active site 1288122004818 metal binding site [ion binding]; metal-binding site 1288122004819 glutathione binding site [chemical binding]; other site 1288122004820 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 1288122004821 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1288122004822 DNA binding site [nucleotide binding] 1288122004823 Int/Topo IB signature motif; other site 1288122004824 active site 1288122004825 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1288122004826 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1288122004827 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 1288122004828 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 1288122004829 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 1288122004830 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1288122004831 DNA binding residues [nucleotide binding] 1288122004832 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1288122004833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004834 active site 1288122004835 phosphorylation site [posttranslational modification] 1288122004836 intermolecular recognition site; other site 1288122004837 dimerization interface [polypeptide binding]; other site 1288122004838 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122004839 dimerization interface [polypeptide binding]; other site 1288122004840 DNA binding residues [nucleotide binding] 1288122004841 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1288122004842 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122004843 dimer interface [polypeptide binding]; other site 1288122004844 phosphorylation site [posttranslational modification] 1288122004845 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122004846 ATP binding site [chemical binding]; other site 1288122004847 Mg2+ binding site [ion binding]; other site 1288122004848 G-X-G motif; other site 1288122004849 tetrathionate reductase subunit B; Provisional; Region: PRK14993 1288122004850 tetrathionate reductase subunit C; Provisional; Region: PRK14992 1288122004851 tetrathionate reductase subunit A; Provisional; Region: PRK14991 1288122004852 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122004853 molybdopterin cofactor binding site; other site 1288122004854 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122004855 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 1288122004856 putative molybdopterin cofactor binding site; other site 1288122004857 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1288122004858 mce related protein; Region: MCE; pfam02470 1288122004859 mce related protein; Region: MCE; pfam02470 1288122004860 mce related protein; Region: MCE; pfam02470 1288122004861 mce related protein; Region: MCE; pfam02470 1288122004862 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 1288122004863 mce related protein; Region: MCE; pfam02470 1288122004864 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 1288122004865 Paraquat-inducible protein A; Region: PqiA; pfam04403 1288122004866 Paraquat-inducible protein A; Region: PqiA; pfam04403 1288122004867 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1288122004868 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1288122004869 ProP expression regulator; Provisional; Region: PRK04950 1288122004870 ProQ/FINO family; Region: ProQ; pfam04352 1288122004871 putative RNA binding sites [nucleotide binding]; other site 1288122004872 carboxy-terminal protease; Provisional; Region: PRK11186 1288122004873 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1288122004874 protein binding site [polypeptide binding]; other site 1288122004875 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1288122004876 Catalytic dyad [active] 1288122004877 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1288122004878 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1288122004879 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1288122004880 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1288122004881 putative active site [active] 1288122004882 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1288122004883 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1288122004884 tetrameric interface [polypeptide binding]; other site 1288122004885 NAD binding site [chemical binding]; other site 1288122004886 catalytic residues [active] 1288122004887 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1288122004888 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1288122004889 PYR/PP interface [polypeptide binding]; other site 1288122004890 dimer interface [polypeptide binding]; other site 1288122004891 TPP binding site [chemical binding]; other site 1288122004892 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1288122004893 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 1288122004894 TPP-binding site; other site 1288122004895 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1288122004896 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1288122004897 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1288122004898 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1288122004899 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 1288122004900 ligand binding site [chemical binding]; other site 1288122004901 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1288122004902 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1288122004903 Walker A/P-loop; other site 1288122004904 ATP binding site [chemical binding]; other site 1288122004905 Q-loop/lid; other site 1288122004906 ABC transporter signature motif; other site 1288122004907 Walker B; other site 1288122004908 D-loop; other site 1288122004909 H-loop/switch region; other site 1288122004910 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1288122004911 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1288122004912 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1288122004913 TM-ABC transporter signature motif; other site 1288122004914 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1288122004915 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1288122004916 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1288122004917 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122004918 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1288122004919 substrate binding site [chemical binding]; other site 1288122004920 ATP binding site [chemical binding]; other site 1288122004921 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 1288122004922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 1288122004923 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1288122004924 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 1288122004925 alpha-amylase; Reviewed; Region: malS; PRK09505 1288122004926 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1288122004927 active site 1288122004928 catalytic site [active] 1288122004929 heat shock protein HtpX; Provisional; Region: PRK05457 1288122004930 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 1288122004931 Predicted transcriptional regulator [Transcription]; Region: COG3905 1288122004932 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1288122004933 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1288122004934 Glutamate binding site [chemical binding]; other site 1288122004935 NAD binding site [chemical binding]; other site 1288122004936 catalytic residues [active] 1288122004937 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1288122004938 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1288122004939 Na binding site [ion binding]; other site 1288122004940 sensor kinase CusS; Provisional; Region: PRK09835 1288122004941 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122004942 dimerization interface [polypeptide binding]; other site 1288122004943 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122004944 dimer interface [polypeptide binding]; other site 1288122004945 phosphorylation site [posttranslational modification] 1288122004946 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122004947 ATP binding site [chemical binding]; other site 1288122004948 Mg2+ binding site [ion binding]; other site 1288122004949 G-X-G motif; other site 1288122004950 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 1288122004951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122004952 active site 1288122004953 phosphorylation site [posttranslational modification] 1288122004954 intermolecular recognition site; other site 1288122004955 dimerization interface [polypeptide binding]; other site 1288122004956 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122004957 DNA binding site [nucleotide binding] 1288122004958 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 1288122004959 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 1288122004960 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1288122004961 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122004962 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1288122004963 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1288122004964 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122004965 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122004966 S-adenosylmethionine binding site [chemical binding]; other site 1288122004967 putative transporter; Provisional; Region: PRK11043 1288122004968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122004969 putative substrate translocation pore; other site 1288122004970 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1288122004971 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122004972 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122004973 dimerization interface [polypeptide binding]; other site 1288122004974 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1288122004975 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122004976 Walker A/P-loop; other site 1288122004977 ATP binding site [chemical binding]; other site 1288122004978 Q-loop/lid; other site 1288122004979 ABC transporter signature motif; other site 1288122004980 Walker B; other site 1288122004981 D-loop; other site 1288122004982 H-loop/switch region; other site 1288122004983 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 1288122004984 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1288122004985 DNA-binding transcriptional repressor PurR; Provisional; Region: PRK10703 1288122004986 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122004987 DNA binding site [nucleotide binding] 1288122004988 domain linker motif; other site 1288122004989 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1288122004990 dimerization interface [polypeptide binding]; other site 1288122004991 ligand binding site [chemical binding]; other site 1288122004992 superoxide dismutase; Provisional; Region: PRK10543 1288122004993 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1288122004994 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1288122004995 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1288122004996 NlpC/P60 family; Region: NLPC_P60; pfam00877 1288122004997 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1288122004998 putative GSH binding site [chemical binding]; other site 1288122004999 catalytic residues [active] 1288122005000 Predicted permease [General function prediction only]; Region: COG2056 1288122005001 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1288122005002 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 1288122005003 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1288122005004 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1288122005005 dimer interface [polypeptide binding]; other site 1288122005006 catalytic site [active] 1288122005007 putative active site [active] 1288122005008 putative substrate binding site [chemical binding]; other site 1288122005009 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1288122005010 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1288122005011 dimer interface [polypeptide binding]; other site 1288122005012 active site 1288122005013 metal binding site [ion binding]; metal-binding site 1288122005014 glutathione binding site [chemical binding]; other site 1288122005015 transcriptional regulator SlyA; Provisional; Region: PRK03573 1288122005016 MarR family; Region: MarR; pfam01047 1288122005017 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 1288122005018 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1288122005019 lysozyme inhibitor; Provisional; Region: PRK11372 1288122005020 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1288122005021 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1288122005022 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1288122005023 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1288122005024 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1288122005025 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1288122005026 active site 1288122005027 HIGH motif; other site 1288122005028 dimer interface [polypeptide binding]; other site 1288122005029 KMSKS motif; other site 1288122005030 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122005031 RNA binding surface [nucleotide binding]; other site 1288122005032 pyridoxamine kinase; Validated; Region: PRK05756 1288122005033 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1288122005034 dimer interface [polypeptide binding]; other site 1288122005035 pyridoxal binding site [chemical binding]; other site 1288122005036 ATP binding site [chemical binding]; other site 1288122005037 glutathionine S-transferase; Provisional; Region: PRK10542 1288122005038 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1288122005039 C-terminal domain interface [polypeptide binding]; other site 1288122005040 GSH binding site (G-site) [chemical binding]; other site 1288122005041 dimer interface [polypeptide binding]; other site 1288122005042 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1288122005043 dimer interface [polypeptide binding]; other site 1288122005044 N-terminal domain interface [polypeptide binding]; other site 1288122005045 substrate binding pocket (H-site) [chemical binding]; other site 1288122005046 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1288122005047 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005048 putative substrate translocation pore; other site 1288122005049 POT family; Region: PTR2; pfam00854 1288122005050 endonuclease III; Provisional; Region: PRK10702 1288122005051 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1288122005052 minor groove reading motif; other site 1288122005053 helix-hairpin-helix signature motif; other site 1288122005054 substrate binding pocket [chemical binding]; other site 1288122005055 active site 1288122005056 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1288122005057 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1288122005058 electron transport complex protein RnfG; Validated; Region: PRK01908 1288122005059 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 1288122005060 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1288122005061 SLBB domain; Region: SLBB; pfam10531 1288122005062 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122005063 electron transport complex protein RnfB; Provisional; Region: PRK05113 1288122005064 Putative Fe-S cluster; Region: FeS; pfam04060 1288122005065 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122005066 electron transport complex protein RsxA; Provisional; Region: PRK05151 1288122005067 Protein of unknown function (DUF2569); Region: DUF2569; pfam10754 1288122005068 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 1288122005069 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1288122005070 Potassium binding sites [ion binding]; other site 1288122005071 Cesium cation binding sites [ion binding]; other site 1288122005072 oriC-binding nucleoid-associated protein; Provisional; Region: PRK10391 1288122005073 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1288122005074 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1288122005075 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1288122005076 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 1288122005077 active site 1288122005078 purine riboside binding site [chemical binding]; other site 1288122005079 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1288122005080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1288122005081 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 1288122005082 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1288122005083 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 1288122005084 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1288122005085 Class II fumarases; Region: Fumarase_classII; cd01362 1288122005086 active site 1288122005087 tetramer interface [polypeptide binding]; other site 1288122005088 DNA replication terminus site-binding protein; Provisional; Region: PRK02951 1288122005089 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1288122005090 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005091 putative substrate translocation pore; other site 1288122005092 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1288122005093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122005094 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1288122005095 dimerization interface [polypeptide binding]; other site 1288122005096 substrate binding pocket [chemical binding]; other site 1288122005097 MarR family; Region: MarR_2; cl17246 1288122005098 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1288122005099 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122005100 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122005101 AAA domain; Region: AAA_26; pfam13500 1288122005102 Transposase; Region: HTH_Tnp_1; pfam01527 1288122005103 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1288122005104 putative transposase OrfB; Reviewed; Region: PHA02517 1288122005105 HTH-like domain; Region: HTH_21; pfam13276 1288122005106 Integrase core domain; Region: rve; pfam00665 1288122005107 Integrase core domain; Region: rve_3; pfam13683 1288122005108 Transposase IS200 like; Region: Y1_Tnp; pfam01797 1288122005109 Haem-binding domain; Region: Haem_bd; pfam14376 1288122005110 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 1288122005111 CAT RNA binding domain; Region: CAT_RBD; smart01061 1288122005112 PRD domain; Region: PRD; pfam00874 1288122005113 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1288122005114 active site turn [active] 1288122005115 phosphorylation site [posttranslational modification] 1288122005116 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1288122005117 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 1288122005118 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1288122005119 beta-galactosidase; Region: BGL; TIGR03356 1288122005120 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 1288122005121 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005122 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1288122005123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005124 Protein of unknown function (DUF1161); Region: DUF1161; pfam06649 1288122005125 hypothetical protein; Provisional; Region: PRK13659 1288122005126 malonic semialdehyde reductase; Provisional; Region: PRK10538 1288122005127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122005128 NAD(P) binding site [chemical binding]; other site 1288122005129 active site 1288122005130 chain length determinant protein WzzB; Provisional; Region: PRK15471 1288122005131 Chain length determinant protein; Region: Wzz; pfam02706 1288122005132 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1288122005133 dimerization interface [polypeptide binding]; other site 1288122005134 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1288122005135 Zn2+ binding site [ion binding]; other site 1288122005136 Mg2+ binding site [ion binding]; other site 1288122005137 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1288122005138 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122005139 Ligand Binding Site [chemical binding]; other site 1288122005140 Peptidase family C69; Region: Peptidase_C69; pfam03577 1288122005141 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1288122005142 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 1288122005143 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122005144 dimerization interface [polypeptide binding]; other site 1288122005145 putative DNA binding site [nucleotide binding]; other site 1288122005146 putative Zn2+ binding site [ion binding]; other site 1288122005147 Outer membrane lipoprotein Slp family; Region: Slp; cl01164 1288122005148 Cache domain; Region: Cache_1; pfam02743 1288122005149 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122005150 dimerization interface [polypeptide binding]; other site 1288122005151 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122005152 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1288122005153 dimer interface [polypeptide binding]; other site 1288122005154 putative CheW interface [polypeptide binding]; other site 1288122005155 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122005156 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122005157 hypothetical protein; Provisional; Region: PRK09981 1288122005158 sulfite reductase, subunit C; Region: sulfite_red_C; TIGR02912 1288122005159 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1288122005160 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122005161 anaerobic sulfite reductase subunit B; Provisional; Region: PRK08221 1288122005162 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 1288122005163 FAD binding pocket [chemical binding]; other site 1288122005164 FAD binding motif [chemical binding]; other site 1288122005165 phosphate binding motif [ion binding]; other site 1288122005166 beta-alpha-beta structure motif; other site 1288122005167 NAD binding pocket [chemical binding]; other site 1288122005168 Iron coordination center [ion binding]; other site 1288122005169 anaerobic sulfite reductase subunit A; Provisional; Region: PRK15055 1288122005170 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122005171 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1288122005172 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1288122005173 Peptidase family U32; Region: Peptidase_U32; pfam01136 1288122005174 Collagenase; Region: DUF3656; pfam12392 1288122005175 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1288122005176 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1288122005177 ligand binding site [chemical binding]; other site 1288122005178 flexible hinge region; other site 1288122005179 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1288122005180 putative switch regulator; other site 1288122005181 non-specific DNA interactions [nucleotide binding]; other site 1288122005182 DNA binding site [nucleotide binding] 1288122005183 sequence specific DNA binding site [nucleotide binding]; other site 1288122005184 putative cAMP binding site [chemical binding]; other site 1288122005185 universal stress protein UspE; Provisional; Region: PRK11175 1288122005186 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122005187 Ligand Binding Site [chemical binding]; other site 1288122005188 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122005189 Ligand Binding Site [chemical binding]; other site 1288122005190 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 1288122005191 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1288122005192 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 1288122005193 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1288122005194 ligand binding site [chemical binding]; other site 1288122005195 homodimer interface [polypeptide binding]; other site 1288122005196 NAD(P) binding site [chemical binding]; other site 1288122005197 trimer interface B [polypeptide binding]; other site 1288122005198 trimer interface A [polypeptide binding]; other site 1288122005199 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1288122005200 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1288122005201 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1288122005202 Protein of unknown function (DUF1471); Region: DUF1471; pfam07338 1288122005203 transporter, basic amino acid/polyamine antiporter (APA) family; Region: 2A0302; TIGR00905 1288122005204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122005205 dihydromonapterin reductase; Provisional; Region: PRK06483 1288122005206 NAD(P) binding site [chemical binding]; other site 1288122005207 active site 1288122005208 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 1288122005209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122005210 active site 1288122005211 phosphorylation site [posttranslational modification] 1288122005212 intermolecular recognition site; other site 1288122005213 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122005214 DNA binding site [nucleotide binding] 1288122005215 sensor protein RstB; Provisional; Region: PRK10604 1288122005216 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122005217 dimerization interface [polypeptide binding]; other site 1288122005218 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122005219 dimer interface [polypeptide binding]; other site 1288122005220 phosphorylation site [posttranslational modification] 1288122005221 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122005222 ATP binding site [chemical binding]; other site 1288122005223 Mg2+ binding site [ion binding]; other site 1288122005224 G-X-G motif; other site 1288122005225 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 1288122005226 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 1288122005227 active site 1288122005228 Zn binding site [ion binding]; other site 1288122005229 type III effector phosphothreonine lyase; Provisional; Region: PRK15245 1288122005230 glucose-1-phosphatase/inositol phosphatase; Provisional; Region: PRK10173 1288122005231 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1288122005232 catalytic core [active] 1288122005233 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 1288122005234 Protein of unknown function (DUF419); Region: DUF419; pfam04237 1288122005235 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1288122005236 Transposase; Region: HTH_Tnp_1; cl17663 1288122005237 putative transposase OrfB; Reviewed; Region: PHA02517 1288122005238 putative transposase OrfB; Reviewed; Region: PHA02517 1288122005239 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1288122005240 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1288122005241 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122005242 Coenzyme A binding pocket [chemical binding]; other site 1288122005243 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1288122005244 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1288122005245 non-specific DNA binding site [nucleotide binding]; other site 1288122005246 salt bridge; other site 1288122005247 sequence-specific DNA binding site [nucleotide binding]; other site 1288122005248 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 1288122005249 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1288122005250 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122005251 ATP binding site [chemical binding]; other site 1288122005252 putative Mg++ binding site [ion binding]; other site 1288122005253 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122005254 nucleotide binding region [chemical binding]; other site 1288122005255 ATP-binding site [chemical binding]; other site 1288122005256 Helicase associated domain (HA2); Region: HA2; pfam04408 1288122005257 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1288122005258 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1288122005259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3784 1288122005260 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1288122005261 hypothetical protein; Provisional; Region: PRK10695 1288122005262 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 1288122005263 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1288122005264 putative ligand binding site [chemical binding]; other site 1288122005265 putative NAD binding site [chemical binding]; other site 1288122005266 catalytic site [active] 1288122005267 Glycogen synthesis protein; Region: GlgS; cl11663 1288122005268 META domain; Region: META; cl01245 1288122005269 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 1288122005270 Domain of unknown function (DUF333); Region: DUF333; pfam03891 1288122005271 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 1288122005272 MgtC family; Region: MgtC; pfam02308 1288122005273 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 1288122005274 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1288122005275 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1288122005276 dimer interface [polypeptide binding]; other site 1288122005277 PYR/PP interface [polypeptide binding]; other site 1288122005278 TPP binding site [chemical binding]; other site 1288122005279 substrate binding site [chemical binding]; other site 1288122005280 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1288122005281 Domain of unknown function; Region: EKR; pfam10371 1288122005282 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1288122005283 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122005284 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 1288122005285 TPP-binding site [chemical binding]; other site 1288122005286 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 1288122005287 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122005288 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122005289 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122005290 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1288122005291 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1288122005292 Ligand Binding Site [chemical binding]; other site 1288122005293 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1288122005294 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1288122005295 Cl binding site [ion binding]; other site 1288122005296 oligomer interface [polypeptide binding]; other site 1288122005297 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 1288122005298 CoenzymeA binding site [chemical binding]; other site 1288122005299 subunit interaction site [polypeptide binding]; other site 1288122005300 PHB binding site; other site 1288122005301 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1288122005302 FAD binding domain; Region: FAD_binding_4; pfam01565 1288122005303 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1288122005304 putative inner membrane protein; Provisional; Region: PRK10983 1288122005305 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1288122005306 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1288122005307 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1288122005308 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1288122005309 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1288122005310 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1288122005311 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 1288122005312 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1288122005313 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 1288122005314 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122005315 FeS/SAM binding site; other site 1288122005316 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 1288122005317 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1288122005318 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122005319 NAD(P) binding site [chemical binding]; other site 1288122005320 active site 1288122005321 Hemin uptake protein hemP; Region: hemP; pfam10636 1288122005322 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1288122005323 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1288122005324 N-terminal plug; other site 1288122005325 ligand-binding site [chemical binding]; other site 1288122005326 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 1288122005327 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1288122005328 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 1288122005329 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 1288122005330 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1288122005331 putative hemin binding site; other site 1288122005332 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1288122005333 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1288122005334 ABC-ATPase subunit interface; other site 1288122005335 dimer interface [polypeptide binding]; other site 1288122005336 putative PBP binding regions; other site 1288122005337 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1288122005338 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1288122005339 Walker A/P-loop; other site 1288122005340 ATP binding site [chemical binding]; other site 1288122005341 Q-loop/lid; other site 1288122005342 ABC transporter signature motif; other site 1288122005343 Walker B; other site 1288122005344 D-loop; other site 1288122005345 H-loop/switch region; other site 1288122005346 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1288122005347 Na binding site [ion binding]; other site 1288122005348 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122005349 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1288122005350 substrate binding site [chemical binding]; other site 1288122005351 ATP binding site [chemical binding]; other site 1288122005352 lipoate-protein ligase A; Provisional; Region: lplA; PRK03822 1288122005353 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1288122005354 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1288122005355 NlpC/P60 family; Region: NLPC_P60; pfam00877 1288122005356 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 1288122005357 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1288122005358 Walker A/P-loop; other site 1288122005359 ATP binding site [chemical binding]; other site 1288122005360 Q-loop/lid; other site 1288122005361 ABC transporter signature motif; other site 1288122005362 Walker B; other site 1288122005363 D-loop; other site 1288122005364 H-loop/switch region; other site 1288122005365 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1288122005366 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1288122005367 ABC-ATPase subunit interface; other site 1288122005368 dimer interface [polypeptide binding]; other site 1288122005369 putative PBP binding regions; other site 1288122005370 hypothetical protein; Provisional; Region: PRK10708 1288122005371 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1288122005372 IHF dimer interface [polypeptide binding]; other site 1288122005373 IHF - DNA interface [nucleotide binding]; other site 1288122005374 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1288122005375 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 1288122005376 putative tRNA-binding site [nucleotide binding]; other site 1288122005377 B3/4 domain; Region: B3_4; pfam03483 1288122005378 tRNA synthetase B5 domain; Region: B5; smart00874 1288122005379 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 1288122005380 dimer interface [polypeptide binding]; other site 1288122005381 motif 1; other site 1288122005382 motif 3; other site 1288122005383 motif 2; other site 1288122005384 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1288122005385 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1288122005386 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1288122005387 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 1288122005388 dimer interface [polypeptide binding]; other site 1288122005389 motif 1; other site 1288122005390 active site 1288122005391 motif 2; other site 1288122005392 motif 3; other site 1288122005393 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1288122005394 23S rRNA binding site [nucleotide binding]; other site 1288122005395 L21 binding site [polypeptide binding]; other site 1288122005396 L13 binding site [polypeptide binding]; other site 1288122005397 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1288122005398 translation initiation factor IF-3; Region: infC; TIGR00168 1288122005399 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1288122005400 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1288122005401 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1288122005402 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1288122005403 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1288122005404 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 1288122005405 active site 1288122005406 dimer interface [polypeptide binding]; other site 1288122005407 motif 1; other site 1288122005408 motif 2; other site 1288122005409 motif 3; other site 1288122005410 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 1288122005411 anticodon binding site; other site 1288122005412 BCCT family transporter; Region: BCCT; cl00569 1288122005413 YobH-like protein; Region: YobH; pfam13996 1288122005414 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1288122005415 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1288122005416 dimerization interface [polypeptide binding]; other site 1288122005417 DPS ferroxidase diiron center [ion binding]; other site 1288122005418 ion pore; other site 1288122005419 6-phosphofructokinase 2; Provisional; Region: PRK10294 1288122005420 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1288122005421 putative substrate binding site [chemical binding]; other site 1288122005422 putative ATP binding site [chemical binding]; other site 1288122005423 Protein of unknown function (DUF4060); Region: DUF4060; pfam13269 1288122005424 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1288122005425 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1288122005426 trimer interface [polypeptide binding]; other site 1288122005427 eyelet of channel; other site 1288122005428 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1288122005429 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1288122005430 protease 2; Provisional; Region: PRK10115 1288122005431 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1288122005432 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122005433 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 1288122005434 YebG protein; Region: YebG; pfam07130 1288122005435 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122005436 DNA-binding site [nucleotide binding]; DNA binding site 1288122005437 RNA-binding motif; other site 1288122005438 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1288122005439 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122005440 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122005441 S-adenosylmethionine binding site [chemical binding]; other site 1288122005442 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 1288122005443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122005444 ATP-grasp domain; Region: ATP-grasp; pfam02222 1288122005445 hypothetical protein; Provisional; Region: PRK05114 1288122005446 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 1288122005447 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1288122005448 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1288122005449 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 1288122005450 putative active site [active] 1288122005451 putative CoA binding site [chemical binding]; other site 1288122005452 nudix motif; other site 1288122005453 metal binding site [ion binding]; metal-binding site 1288122005454 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1288122005455 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1288122005456 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1288122005457 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 1288122005458 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 1288122005459 4Fe-4S binding domain; Region: Fer4; cl02805 1288122005460 thiosulfate reductase PhsA; Provisional; Region: PRK15488 1288122005461 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 1288122005462 putative [Fe4-S4] binding site [ion binding]; other site 1288122005463 putative molybdopterin cofactor binding site [chemical binding]; other site 1288122005464 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122005465 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 1288122005466 putative molybdopterin cofactor binding site; other site 1288122005467 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1288122005468 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1288122005469 putative dimer interface [polypeptide binding]; other site 1288122005470 active site pocket [active] 1288122005471 putative cataytic base [active] 1288122005472 cobyric acid synthase; Provisional; Region: PRK00784 1288122005473 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122005474 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122005475 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1288122005476 catalytic triad [active] 1288122005477 threonine-phosphate decarboxylase; Provisional; Region: PRK08056 1288122005478 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122005479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122005480 homodimer interface [polypeptide binding]; other site 1288122005481 catalytic residue [active] 1288122005482 pyruvate kinase; Provisional; Region: PRK09206 1288122005483 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cd00288 1288122005484 domain interfaces; other site 1288122005485 active site 1288122005486 murein lipoprotein; Provisional; Region: PRK15396 1288122005487 L,D-transpeptidase; Provisional; Region: PRK10190 1288122005488 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1288122005489 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 1288122005490 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1288122005491 peptide binding site [polypeptide binding]; other site 1288122005492 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 1288122005493 dimer interface [polypeptide binding]; other site 1288122005494 catalytic triad [active] 1288122005495 peroxidatic and resolving cysteines [active] 1288122005496 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 1288122005497 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1288122005498 putative aromatic amino acid binding site; other site 1288122005499 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122005500 putative active site [active] 1288122005501 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122005502 Walker A motif; other site 1288122005503 ATP binding site [chemical binding]; other site 1288122005504 Walker B motif; other site 1288122005505 arginine finger; other site 1288122005506 3-mercaptopyruvate sulfurtransferase; Provisional; Region: sseA; PRK11493 1288122005507 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1288122005508 active site residue [active] 1288122005509 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1288122005510 active site residue [active] 1288122005511 hypothetical protein; Provisional; Region: PRK05415 1288122005512 Domain of unknown function (DUF697); Region: DUF697; cl12064 1288122005513 Predicted ATPase [General function prediction only]; Region: COG3106 1288122005514 Phage shock protein PspD (Phageshock_PspD); Region: Phageshock_PspD; cl11512 1288122005515 DNA-binding transcriptional activator PspC; Provisional; Region: PRK10697 1288122005516 phage shock protein C; Region: phageshock_pspC; TIGR02978 1288122005517 phage shock protein B; Provisional; Region: pspB; PRK09458 1288122005518 phage shock protein PspA; Provisional; Region: PRK10698 1288122005519 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 1288122005520 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122005521 Walker A motif; other site 1288122005522 ATP binding site [chemical binding]; other site 1288122005523 Walker B motif; other site 1288122005524 arginine finger; other site 1288122005525 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122005526 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1288122005527 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1288122005528 peptide binding site [polypeptide binding]; other site 1288122005529 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 1288122005530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122005531 dimer interface [polypeptide binding]; other site 1288122005532 conserved gate region; other site 1288122005533 putative PBP binding loops; other site 1288122005534 ABC-ATPase subunit interface; other site 1288122005535 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 1288122005536 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122005537 dimer interface [polypeptide binding]; other site 1288122005538 conserved gate region; other site 1288122005539 putative PBP binding loops; other site 1288122005540 ABC-ATPase subunit interface; other site 1288122005541 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 1288122005542 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122005543 Walker A/P-loop; other site 1288122005544 ATP binding site [chemical binding]; other site 1288122005545 Q-loop/lid; other site 1288122005546 ABC transporter signature motif; other site 1288122005547 Walker B; other site 1288122005548 D-loop; other site 1288122005549 H-loop/switch region; other site 1288122005550 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1288122005551 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional; Region: PRK15112 1288122005552 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122005553 Walker A/P-loop; other site 1288122005554 ATP binding site [chemical binding]; other site 1288122005555 Q-loop/lid; other site 1288122005556 ABC transporter signature motif; other site 1288122005557 Walker B; other site 1288122005558 D-loop; other site 1288122005559 H-loop/switch region; other site 1288122005560 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1288122005561 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122005562 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1288122005563 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1288122005564 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1288122005565 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1288122005566 AMP nucleosidase; Provisional; Region: PRK08292 1288122005567 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1288122005568 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1288122005569 exoribonuclease II; Provisional; Region: PRK05054 1288122005570 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1288122005571 RNB domain; Region: RNB; pfam00773 1288122005572 S1 RNA binding domain; Region: S1; pfam00575 1288122005573 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1288122005574 Di- and tripeptidases [Amino acid transport and metabolism]; Region: PepD; COG2195 1288122005575 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1288122005576 metal binding site [ion binding]; metal-binding site 1288122005577 dimer interface [polypeptide binding]; other site 1288122005578 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 1288122005579 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1288122005580 Walker A/P-loop; other site 1288122005581 ATP binding site [chemical binding]; other site 1288122005582 Q-loop/lid; other site 1288122005583 ABC transporter signature motif; other site 1288122005584 Walker B; other site 1288122005585 D-loop; other site 1288122005586 H-loop/switch region; other site 1288122005587 TOBE domain; Region: TOBE_2; pfam08402 1288122005588 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1288122005589 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122005590 dimer interface [polypeptide binding]; other site 1288122005591 conserved gate region; other site 1288122005592 putative PBP binding loops; other site 1288122005593 ABC-ATPase subunit interface; other site 1288122005594 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1288122005595 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122005596 dimer interface [polypeptide binding]; other site 1288122005597 conserved gate region; other site 1288122005598 putative PBP binding loops; other site 1288122005599 ABC-ATPase subunit interface; other site 1288122005600 lysine/cadaverine antiporter; Provisional; Region: cadB; PRK10435 1288122005601 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 1288122005602 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 1288122005603 hypothetical protein; Provisional; Region: PRK04940 1288122005604 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1288122005605 beta-hexosaminidase; Provisional; Region: PRK05337 1288122005606 thiamine kinase; Region: ycfN_thiK; TIGR02721 1288122005607 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 1288122005608 substrate binding site [chemical binding]; other site 1288122005609 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 1288122005610 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 1288122005611 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 1288122005612 putative dimer interface [polypeptide binding]; other site 1288122005613 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 1288122005614 nucleotide binding site/active site [active] 1288122005615 HIT family signature motif; other site 1288122005616 catalytic residue [active] 1288122005617 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1288122005618 dimer interface [polypeptide binding]; other site 1288122005619 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1288122005620 dimer interface [polypeptide binding]; other site 1288122005621 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 1288122005622 2-deoxy-D-gluconate 3-dehydrogenase; Validated; Region: PRK08993 1288122005623 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1288122005624 NADP binding site [chemical binding]; other site 1288122005625 homodimer interface [polypeptide binding]; other site 1288122005626 active site 1288122005627 Haemagglutinin; Region: HIM; pfam05662 1288122005628 YadA-like C-terminal region; Region: YadA; pfam03895 1288122005629 putative outer membrane lipoprotein; Provisional; Region: PRK09967 1288122005630 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122005631 ligand binding site [chemical binding]; other site 1288122005632 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1288122005633 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122005634 metal binding site [ion binding]; metal-binding site 1288122005635 active site 1288122005636 I-site; other site 1288122005637 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 1288122005638 Nitrous oxide-stimulated promoter; Region: YgbA_NO; cl08119 1288122005639 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122005640 Ligand Binding Site [chemical binding]; other site 1288122005641 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 1288122005642 CHASE domain; Region: CHASE; pfam03924 1288122005643 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122005644 PAS domain; Region: PAS_9; pfam13426 1288122005645 putative active site [active] 1288122005646 heme pocket [chemical binding]; other site 1288122005647 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122005648 PAS domain; Region: PAS_9; pfam13426 1288122005649 putative active site [active] 1288122005650 heme pocket [chemical binding]; other site 1288122005651 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1288122005652 putative active site [active] 1288122005653 heme pocket [chemical binding]; other site 1288122005654 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122005655 dimer interface [polypeptide binding]; other site 1288122005656 phosphorylation site [posttranslational modification] 1288122005657 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122005658 ATP binding site [chemical binding]; other site 1288122005659 Mg2+ binding site [ion binding]; other site 1288122005660 G-X-G motif; other site 1288122005661 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1288122005662 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122005663 active site 1288122005664 phosphorylation site [posttranslational modification] 1288122005665 intermolecular recognition site; other site 1288122005666 dimerization interface [polypeptide binding]; other site 1288122005667 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1288122005668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122005669 active site 1288122005670 phosphorylation site [posttranslational modification] 1288122005671 intermolecular recognition site; other site 1288122005672 dimerization interface [polypeptide binding]; other site 1288122005673 Hpt domain; Region: Hpt; pfam01627 1288122005674 putative binding surface; other site 1288122005675 active site 1288122005676 Response regulator receiver domain; Region: Response_reg; pfam00072 1288122005677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122005678 active site 1288122005679 phosphorylation site [posttranslational modification] 1288122005680 intermolecular recognition site; other site 1288122005681 dimerization interface [polypeptide binding]; other site 1288122005682 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122005683 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122005684 metal binding site [ion binding]; metal-binding site 1288122005685 active site 1288122005686 I-site; other site 1288122005687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005688 D-galactonate transporter; Region: 2A0114; TIGR00893 1288122005689 putative substrate translocation pore; other site 1288122005690 Beta/Gamma crystallin; Region: Crystall; cl02528 1288122005691 alpha-galactosidase; Provisional; Region: PRK15076 1288122005692 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1288122005693 NAD binding site [chemical binding]; other site 1288122005694 sugar binding site [chemical binding]; other site 1288122005695 divalent metal binding site [ion binding]; other site 1288122005696 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122005697 dimer interface [polypeptide binding]; other site 1288122005698 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 1288122005699 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122005700 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122005701 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122005702 binding surface 1288122005703 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1288122005704 TPR motif; other site 1288122005705 Protein of unknown function (DUF560); Region: DUF560; pfam04575 1288122005706 Transferrin binding protein-like solute binding protein; Region: Lipoprotein_5; pfam01298 1288122005707 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1288122005708 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1288122005709 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122005710 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1288122005711 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1288122005712 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1288122005713 putative aldolase; Validated; Region: PRK08130 1288122005714 intersubunit interface [polypeptide binding]; other site 1288122005715 active site 1288122005716 Zn2+ binding site [ion binding]; other site 1288122005717 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1288122005718 putative transporter; Provisional; Region: PRK09821 1288122005719 GntP family permease; Region: GntP_permease; pfam02447 1288122005720 Domain of unknown function (DUF305); Region: DUF305; cl17794 1288122005721 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1288122005722 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 1288122005723 dimer interface [polypeptide binding]; other site 1288122005724 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122005725 catalytic residue [active] 1288122005726 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1288122005727 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1288122005728 homodimer interface [polypeptide binding]; other site 1288122005729 substrate-cofactor binding pocket; other site 1288122005730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122005731 catalytic residue [active] 1288122005732 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 1288122005733 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1288122005734 dimer interface [polypeptide binding]; other site 1288122005735 PYR/PP interface [polypeptide binding]; other site 1288122005736 TPP binding site [chemical binding]; other site 1288122005737 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1288122005738 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 1288122005739 TPP-binding site [chemical binding]; other site 1288122005740 dimer interface [polypeptide binding]; other site 1288122005741 OpgC protein; Region: OpgC_C; cl17858 1288122005742 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1288122005743 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 1288122005744 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 1288122005745 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 1288122005746 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1288122005747 DXD motif; other site 1288122005748 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1288122005749 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1288122005750 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1288122005751 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1288122005752 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1288122005753 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1288122005754 Predicted membrane protein [Function unknown]; Region: COG2246 1288122005755 GtrA-like protein; Region: GtrA; pfam04138 1288122005756 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1288122005757 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1288122005758 Ligand binding site; other site 1288122005759 Putative Catalytic site; other site 1288122005760 DXD motif; other site 1288122005761 Glucosyl transferase GtrII; Region: Glucos_trans_II; pfam14264 1288122005762 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 1288122005763 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1288122005764 Coenzyme A binding pocket [chemical binding]; other site 1288122005765 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 1288122005766 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1288122005767 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1288122005768 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1288122005769 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1288122005770 SLBB domain; Region: SLBB; pfam10531 1288122005771 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1288122005772 Chain length determinant protein; Region: Wzz; cl15801 1288122005773 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 1288122005774 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1288122005775 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1288122005776 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 1288122005777 active site 1288122005778 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122005779 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1288122005780 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1288122005781 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 1288122005782 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 1288122005783 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 1288122005784 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1288122005785 trimer interface [polypeptide binding]; other site 1288122005786 active site 1288122005787 substrate binding site [chemical binding]; other site 1288122005788 CoA binding site [chemical binding]; other site 1288122005789 Mig-14; Region: Mig-14; pfam07395 1288122005790 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1288122005791 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1288122005792 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1288122005793 ABC-ATPase subunit interface; other site 1288122005794 dimer interface [polypeptide binding]; other site 1288122005795 putative PBP binding regions; other site 1288122005796 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1288122005797 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1288122005798 Walker A/P-loop; other site 1288122005799 ATP binding site [chemical binding]; other site 1288122005800 Q-loop/lid; other site 1288122005801 ABC transporter signature motif; other site 1288122005802 Walker B; other site 1288122005803 D-loop; other site 1288122005804 H-loop/switch region; other site 1288122005805 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 1288122005806 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 1288122005807 IucA / IucC family; Region: IucA_IucC; pfam04183 1288122005808 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1288122005809 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 1288122005810 IucA / IucC family; Region: IucA_IucC; pfam04183 1288122005811 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 1288122005812 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1288122005813 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 1288122005814 dimer interface [polypeptide binding]; other site 1288122005815 active site 1288122005816 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122005817 catalytic residues [active] 1288122005818 substrate binding site [chemical binding]; other site 1288122005819 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1288122005820 intersubunit interface [polypeptide binding]; other site 1288122005821 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1288122005822 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1288122005823 N-terminal plug; other site 1288122005824 ligand-binding site [chemical binding]; other site 1288122005825 deoxyribose mutarotase_like; Region: deoxyribose_mutarotase; cd09269 1288122005826 active site 1288122005827 catalytic residues [active] 1288122005828 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 1288122005829 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122005830 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122005831 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1288122005832 substrate binding site [chemical binding]; other site 1288122005833 dimer interface [polypeptide binding]; other site 1288122005834 ATP binding site [chemical binding]; other site 1288122005835 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1288122005836 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1288122005837 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122005838 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1288122005839 SnoaL-like domain; Region: SnoaL_3; pfam13474 1288122005840 putative CoA-transferase; Provisional; Region: PRK11430 1288122005841 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1288122005842 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1288122005843 substrate binding site [chemical binding]; other site 1288122005844 PrpF protein; Region: PrpF; pfam04303 1288122005845 Propionate catabolism activator; Region: PrpR_N; pfam06506 1288122005846 PAS domain; Region: PAS; smart00091 1288122005847 PAS domain; Region: PAS_9; pfam13426 1288122005848 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122005849 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1288122005850 Walker A motif; other site 1288122005851 ATP binding site [chemical binding]; other site 1288122005852 Walker B motif; other site 1288122005853 arginine finger; other site 1288122005854 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 1288122005855 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 1288122005856 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 1288122005857 homotrimer interface [polypeptide binding]; other site 1288122005858 Walker A motif; other site 1288122005859 GTP binding site [chemical binding]; other site 1288122005860 Walker B motif; other site 1288122005861 cobyric acid synthase; Provisional; Region: PRK00784 1288122005862 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122005863 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122005864 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1288122005865 catalytic triad [active] 1288122005866 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13638 1288122005867 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1288122005868 Walker A/P-loop; other site 1288122005869 ATP binding site [chemical binding]; other site 1288122005870 Q-loop/lid; other site 1288122005871 ABC transporter signature motif; other site 1288122005872 Walker B; other site 1288122005873 D-loop; other site 1288122005874 H-loop/switch region; other site 1288122005875 cobalt transport protein CbiQ; Provisional; Region: PRK15485 1288122005876 cobalt transport protein CbiN; Provisional; Region: PRK02898 1288122005877 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1288122005878 cobalt transport protein CbiM; Validated; Region: PRK08319 1288122005879 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1288122005880 active site 1288122005881 SAM binding site [chemical binding]; other site 1288122005882 homodimer interface [polypeptide binding]; other site 1288122005883 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 1288122005884 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 1288122005885 active site 1288122005886 C-terminal domain interface [polypeptide binding]; other site 1288122005887 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 1288122005888 active site 1288122005889 N-terminal domain interface [polypeptide binding]; other site 1288122005890 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 1288122005891 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1288122005892 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1288122005893 active site 1288122005894 SAM binding site [chemical binding]; other site 1288122005895 homodimer interface [polypeptide binding]; other site 1288122005896 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 1288122005897 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1288122005898 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1288122005899 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1288122005900 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1288122005901 active site 1288122005902 SAM binding site [chemical binding]; other site 1288122005903 homodimer interface [polypeptide binding]; other site 1288122005904 cobalt-precorrin-6Y C(15)-methyltransferase; Validated; Region: PRK08287 1288122005905 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122005906 S-adenosylmethionine binding site [chemical binding]; other site 1288122005907 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1288122005908 active site 1288122005909 putative homodimer interface [polypeptide binding]; other site 1288122005910 SAM binding site [chemical binding]; other site 1288122005911 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1288122005912 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; PRK08286 1288122005913 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1288122005914 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1288122005915 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1288122005916 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1288122005917 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1288122005918 catalytic triad [active] 1288122005919 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 1288122005920 sensory histidine kinase AtoS; Provisional; Region: PRK11360 1288122005921 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122005922 putative active site [active] 1288122005923 heme pocket [chemical binding]; other site 1288122005924 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122005925 dimer interface [polypeptide binding]; other site 1288122005926 phosphorylation site [posttranslational modification] 1288122005927 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122005928 ATP binding site [chemical binding]; other site 1288122005929 Mg2+ binding site [ion binding]; other site 1288122005930 G-X-G motif; other site 1288122005931 acetoacetate metabolism regulatory protein AtoC; Provisional; Region: PRK11361 1288122005932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122005933 active site 1288122005934 phosphorylation site [posttranslational modification] 1288122005935 intermolecular recognition site; other site 1288122005936 dimerization interface [polypeptide binding]; other site 1288122005937 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122005938 Walker A motif; other site 1288122005939 ATP binding site [chemical binding]; other site 1288122005940 Walker B motif; other site 1288122005941 arginine finger; other site 1288122005942 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122005943 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 1288122005944 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1288122005945 Short chain fatty acid transporter; Region: SCFA_trans; pfam02667 1288122005946 putative acyltransferase; Provisional; Region: PRK05790 1288122005947 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1288122005948 dimer interface [polypeptide binding]; other site 1288122005949 active site 1288122005950 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1288122005951 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1288122005952 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1288122005953 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1288122005954 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1288122005955 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1288122005956 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1288122005957 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1288122005958 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1288122005959 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1288122005960 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1288122005961 Walker A motif; other site 1288122005962 ATP binding site [chemical binding]; other site 1288122005963 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1288122005964 McrBC 5-methylcytosine restriction system component; Region: McrBC; pfam10117 1288122005965 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1288122005966 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1288122005967 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122005968 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122005969 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122005970 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1288122005971 active site 1288122005972 motif I; other site 1288122005973 motif II; other site 1288122005974 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1288122005975 Condensation domain; Region: Condensation; pfam00668 1288122005976 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 1288122005977 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 1288122005978 acyl-activating enzyme (AAE) consensus motif; other site 1288122005979 AMP binding site [chemical binding]; other site 1288122005980 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 1288122005981 Condensation domain; Region: Condensation; pfam00668 1288122005982 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 1288122005983 Condensation domain; Region: Condensation; pfam00668 1288122005984 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 1288122005985 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 1288122005986 Zn binding site [ion binding]; other site 1288122005987 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1288122005988 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1288122005989 Propionate catabolism activator; Region: PrpR_N; pfam06506 1288122005990 PAS fold; Region: PAS; pfam00989 1288122005991 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122005992 putative active site [active] 1288122005993 heme pocket [chemical binding]; other site 1288122005994 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122005995 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1288122005996 Walker A motif; other site 1288122005997 ATP binding site [chemical binding]; other site 1288122005998 Walker B motif; other site 1288122005999 arginine finger; other site 1288122006000 EamA-like transporter family; Region: EamA; pfam00892 1288122006001 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1288122006002 EamA-like transporter family; Region: EamA; pfam00892 1288122006003 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1288122006004 metal binding site [ion binding]; metal-binding site 1288122006005 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1288122006006 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1288122006007 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1288122006008 metal binding site [ion binding]; metal-binding site 1288122006009 3-isopropylmalate dehydratase large subunit [Amino acid transport and metabolism]; Region: LeuC; COG0065 1288122006010 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1288122006011 substrate binding site [chemical binding]; other site 1288122006012 ligand binding site [chemical binding]; other site 1288122006013 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 1288122006014 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 1288122006015 substrate binding site [chemical binding]; other site 1288122006016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 1288122006017 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1288122006018 substrate binding site [chemical binding]; other site 1288122006019 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1288122006020 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1288122006021 ImpA domain protein; Region: DUF3702; pfam12486 1288122006022 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1288122006023 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1288122006024 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1288122006025 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1288122006026 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 1288122006027 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3515 1288122006028 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1288122006029 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 1288122006030 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 1288122006031 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 1288122006032 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1288122006033 PAAR motif; Region: PAAR_motif; pfam05488 1288122006034 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1288122006035 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1288122006036 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 1288122006037 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1288122006038 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1288122006039 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 1288122006040 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 1288122006041 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1288122006042 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122006043 Walker A motif; other site 1288122006044 ATP binding site [chemical binding]; other site 1288122006045 Walker B motif; other site 1288122006046 arginine finger; other site 1288122006047 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122006048 Walker A motif; other site 1288122006049 ATP binding site [chemical binding]; other site 1288122006050 Walker B motif; other site 1288122006051 arginine finger; other site 1288122006052 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1288122006053 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 1288122006054 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1288122006055 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122006056 ligand binding site [chemical binding]; other site 1288122006057 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1288122006058 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 1288122006059 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1288122006060 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1288122006061 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1288122006062 Protein of unknown function (DUF770); Region: DUF770; cl01402 1288122006063 Hok/gef family; Region: HOK_GEF; pfam01848 1288122006064 Hok/gef family; Region: HOK_GEF; pfam01848 1288122006065 phosphatidylglycerophosphate synthetase; Provisional; Region: PRK10832 1288122006066 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1288122006067 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1288122006068 GIY-YIG motif/motif A; other site 1288122006069 active site 1288122006070 catalytic site [active] 1288122006071 putative DNA binding site [nucleotide binding]; other site 1288122006072 metal binding site [ion binding]; metal-binding site 1288122006073 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1288122006074 response regulator; Provisional; Region: PRK09483 1288122006075 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122006076 active site 1288122006077 phosphorylation site [posttranslational modification] 1288122006078 intermolecular recognition site; other site 1288122006079 dimerization interface [polypeptide binding]; other site 1288122006080 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122006081 DNA binding residues [nucleotide binding] 1288122006082 dimerization interface [polypeptide binding]; other site 1288122006083 hypothetical protein; Provisional; Region: PRK10613 1288122006084 GlpM protein; Region: GlpM; cl01212 1288122006085 chaperone protein HchA; Provisional; Region: PRK04155 1288122006086 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 1288122006087 conserved cys residue [active] 1288122006088 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1288122006089 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1288122006090 KilA-N domain; Region: KilA-N; pfam04383 1288122006091 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 1288122006092 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1288122006093 Phage P2 GpU; Region: Phage_P2_GpU; cl01391 1288122006094 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 1288122006095 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1288122006096 Phage tail tube protein FII; Region: Phage_tube; cl01390 1288122006097 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1288122006098 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 1288122006099 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1288122006100 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1288122006101 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 1288122006102 Baseplate J-like protein; Region: Baseplate_J; cl01294 1288122006103 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 1288122006104 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 1288122006105 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 1288122006106 Uncharacterized conserved protein (DUF2190); Region: DUF2190; cl02289 1288122006107 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1288122006108 oligomer interface [polypeptide binding]; other site 1288122006109 active site residues [active] 1288122006110 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 1288122006111 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1288122006112 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 1288122006113 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 1288122006114 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 1288122006115 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1288122006116 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1288122006117 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1288122006118 Phage holin family (Lysis protein S); Region: Phage_holin_3; pfam05106 1288122006119 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1288122006120 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 1288122006121 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 1288122006122 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1288122006123 Replication protein P; Region: Phage_lambda_P; pfam06992 1288122006124 Helix-turn-helix domain; Region: HTH_36; pfam13730 1288122006125 Ash protein family; Region: Phage_ASH; pfam10554 1288122006126 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 1288122006127 Protein of unknown function (DUF497); Region: DUF497; pfam04365 1288122006128 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1288122006129 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1288122006130 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 1288122006131 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1288122006132 non-specific DNA binding site [nucleotide binding]; other site 1288122006133 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 1288122006134 salt bridge; other site 1288122006135 sequence-specific DNA binding site [nucleotide binding]; other site 1288122006136 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1288122006137 Catalytic site [active] 1288122006138 Protein of unknown function (DUF2971); Region: DUF2971; pfam11185 1288122006139 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 1288122006140 Excisionase-like protein; Region: Exc; pfam07825 1288122006141 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 1288122006142 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1288122006143 Lambda integrase, C-terminal catalytic domain. Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They belong to the superfamily...; Region: INT_Lambda_C; cd00800 1288122006144 dimer interface [polypeptide binding]; other site 1288122006145 active site 1288122006146 Int/Topo IB signature motif; other site 1288122006147 isocitrate dehydrogenase; Validated; Region: PRK07362 1288122006148 isocitrate dehydrogenase; Reviewed; Region: PRK07006 1288122006149 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1288122006150 pseudouridine synthase; Region: TIGR00093 1288122006151 active site 1288122006152 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 1288122006153 nudix motif; other site 1288122006154 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1288122006155 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 1288122006156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122006157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122006158 metal binding site [ion binding]; metal-binding site 1288122006159 active site 1288122006160 I-site; other site 1288122006161 putative lysogenization regulator; Reviewed; Region: PRK00218 1288122006162 adenylosuccinate lyase; Provisional; Region: PRK09285 1288122006163 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1288122006164 tetramer interface [polypeptide binding]; other site 1288122006165 active site 1288122006166 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1288122006167 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122006168 DNA-binding site [nucleotide binding]; DNA binding site 1288122006169 UTRA domain; Region: UTRA; pfam07702 1288122006170 ADP-ribosylglycohydrolase [Posttranslational modification, protein turnover, chaperones]; Region: DraG; COG1397 1288122006171 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 1288122006172 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122006173 active site 1288122006174 phosphorylation site [posttranslational modification] 1288122006175 intermolecular recognition site; other site 1288122006176 dimerization interface [polypeptide binding]; other site 1288122006177 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122006178 DNA binding site [nucleotide binding] 1288122006179 sensor protein PhoQ; Provisional; Region: PRK10815 1288122006180 PhoQ Sensor; Region: PhoQ_Sensor; pfam08918 1288122006181 HAMP domain; Region: HAMP; pfam00672 1288122006182 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122006183 dimer interface [polypeptide binding]; other site 1288122006184 phosphorylation site [posttranslational modification] 1288122006185 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122006186 ATP binding site [chemical binding]; other site 1288122006187 Mg2+ binding site [ion binding]; other site 1288122006188 G-X-G motif; other site 1288122006189 Uncharacterized conserved protein [Function unknown]; Region: COG2850 1288122006190 NAD-dependent deacetylase; Provisional; Region: PRK00481 1288122006191 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 1288122006192 NAD+ binding site [chemical binding]; other site 1288122006193 substrate binding site [chemical binding]; other site 1288122006194 Zn binding site [ion binding]; other site 1288122006195 fructokinase; Reviewed; Region: PRK09557 1288122006196 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122006197 nucleotide binding site [chemical binding]; other site 1288122006198 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1288122006199 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1288122006200 FtsX-like permease family; Region: FtsX; pfam02687 1288122006201 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 1288122006202 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1288122006203 Walker A/P-loop; other site 1288122006204 ATP binding site [chemical binding]; other site 1288122006205 Q-loop/lid; other site 1288122006206 ABC transporter signature motif; other site 1288122006207 Walker B; other site 1288122006208 D-loop; other site 1288122006209 H-loop/switch region; other site 1288122006210 outer membrane-specific lipoprotein transporter subunit LolC; Provisional; Region: PRK10814 1288122006211 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1288122006212 FtsX-like permease family; Region: FtsX; pfam02687 1288122006213 transcription-repair coupling factor; Provisional; Region: PRK10689 1288122006214 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1288122006215 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122006216 ATP binding site [chemical binding]; other site 1288122006217 putative Mg++ binding site [ion binding]; other site 1288122006218 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122006219 nucleotide binding region [chemical binding]; other site 1288122006220 ATP-binding site [chemical binding]; other site 1288122006221 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1288122006222 hypothetical protein; Provisional; Region: PRK11280 1288122006223 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1288122006224 EamA-like transporter family; Region: EamA; pfam00892 1288122006225 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1288122006226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122006227 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1288122006228 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1288122006229 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122006230 DinI-like family; Region: DinI; cl11630 1288122006231 biofilm formation regulatory protein BssS; Reviewed; Region: bssS; PRK12301 1288122006232 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 1288122006233 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1288122006234 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122006235 DNA binding residues [nucleotide binding] 1288122006236 dimerization interface [polypeptide binding]; other site 1288122006237 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1288122006238 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122006239 DNA-binding site [nucleotide binding]; DNA binding site 1288122006240 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122006241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122006242 homodimer interface [polypeptide binding]; other site 1288122006243 catalytic residue [active] 1288122006244 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1288122006245 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1288122006246 lipoprotein; Provisional; Region: PRK10540 1288122006247 translation initiation factor Sui1; Validated; Region: PRK06824 1288122006248 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1288122006249 putative rRNA binding site [nucleotide binding]; other site 1288122006250 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 1288122006251 active site 1288122006252 dimer interface [polypeptide binding]; other site 1288122006253 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1288122006254 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122006255 TPR motif; other site 1288122006256 binding surface 1288122006257 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122006258 binding surface 1288122006259 TPR motif; other site 1288122006260 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1288122006261 binding surface 1288122006262 TPR motif; other site 1288122006263 Predicted membrane protein [Function unknown]; Region: COG3771 1288122006264 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1288122006265 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 1288122006266 active site 1288122006267 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 1288122006268 dimerization interface [polypeptide binding]; other site 1288122006269 active site 1288122006270 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1288122006271 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1288122006272 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1288122006273 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1288122006274 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 1288122006275 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1288122006276 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1288122006277 active site turn [active] 1288122006278 phosphorylation site [posttranslational modification] 1288122006279 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1288122006280 active site 1288122006281 DNA polymerase III subunit delta'; Validated; Region: PRK07993 1288122006282 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1288122006283 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 1288122006284 thymidylate kinase; Validated; Region: tmk; PRK00698 1288122006285 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 1288122006286 TMP-binding site; other site 1288122006287 ATP-binding site [chemical binding]; other site 1288122006288 YceG-like family; Region: YceG; pfam02618 1288122006289 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1288122006290 dimerization interface [polypeptide binding]; other site 1288122006291 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1288122006292 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 1288122006293 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122006294 catalytic residue [active] 1288122006295 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1288122006296 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1288122006297 dimer interface [polypeptide binding]; other site 1288122006298 active site 1288122006299 acyl carrier protein; Provisional; Region: acpP; PRK00982 1288122006300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1288122006301 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1288122006302 NAD(P) binding site [chemical binding]; other site 1288122006303 homotetramer interface [polypeptide binding]; other site 1288122006304 homodimer interface [polypeptide binding]; other site 1288122006305 active site 1288122006306 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1288122006307 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1288122006308 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1288122006309 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1288122006310 dimer interface [polypeptide binding]; other site 1288122006311 active site 1288122006312 CoA binding pocket [chemical binding]; other site 1288122006313 putative phosphate acyltransferase; Provisional; Region: PRK05331 1288122006314 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1288122006315 hypothetical protein; Provisional; Region: PRK11193 1288122006316 Maf-like protein; Region: Maf; pfam02545 1288122006317 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1288122006318 active site 1288122006319 dimer interface [polypeptide binding]; other site 1288122006320 YadA-like C-terminal region; Region: YadA; pfam03895 1288122006321 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1288122006322 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122006323 RNA binding surface [nucleotide binding]; other site 1288122006324 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1288122006325 active site 1288122006326 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 1288122006327 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1288122006328 homodimer interface [polypeptide binding]; other site 1288122006329 oligonucleotide binding site [chemical binding]; other site 1288122006330 Uncharacterized conserved protein [Function unknown]; Region: COG1359 1288122006331 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 1288122006332 active site 1288122006333 substrate binding pocket [chemical binding]; other site 1288122006334 dimer interface [polypeptide binding]; other site 1288122006335 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 1288122006336 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1288122006337 Walker A/P-loop; other site 1288122006338 ATP binding site [chemical binding]; other site 1288122006339 Q-loop/lid; other site 1288122006340 ABC transporter signature motif; other site 1288122006341 Walker B; other site 1288122006342 D-loop; other site 1288122006343 H-loop/switch region; other site 1288122006344 TIGR00245 family protein; Region: TIGR00245 1288122006345 fumarate hydratase; Provisional; Region: PRK15389 1288122006346 Tartrate dehydratase alpha subunit/Fumarate hydratase class I, N-terminal domain [Energy production and conversion]; Region: TtdA; COG1951 1288122006347 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1288122006348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122006349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122006350 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 1288122006351 putative dimerization interface [polypeptide binding]; other site 1288122006352 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1288122006353 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122006354 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 1288122006355 NAD(P) binding site [chemical binding]; other site 1288122006356 active site 1288122006357 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional; Region: PRK09920 1288122006358 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1288122006359 putative acyltransferase; Provisional; Region: PRK05790 1288122006360 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 1288122006361 dimer interface [polypeptide binding]; other site 1288122006362 active site 1288122006363 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1288122006364 amphipathic channel; other site 1288122006365 Asn-Pro-Ala signature motifs; other site 1288122006366 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional; Region: PRK11264 1288122006367 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1288122006368 Walker A/P-loop; other site 1288122006369 ATP binding site [chemical binding]; other site 1288122006370 Q-loop/lid; other site 1288122006371 ABC transporter signature motif; other site 1288122006372 Walker B; other site 1288122006373 D-loop; other site 1288122006374 H-loop/switch region; other site 1288122006375 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1288122006376 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 1288122006377 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1288122006378 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1288122006379 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1288122006380 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1288122006381 DNA binding residues [nucleotide binding] 1288122006382 flagellin; Validated; Region: PRK06819 1288122006383 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1288122006384 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1288122006385 flagellin; Validated; Region: PRK06819 1288122006386 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1288122006387 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1288122006388 flagellar capping protein; Reviewed; Region: fliD; PRK08032 1288122006389 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1288122006390 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1288122006391 flagellar protein FliS; Validated; Region: fliS; PRK05685 1288122006392 Flagellar protein FliT; Region: FliT; cl05125 1288122006393 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122006394 DNA-binding site [nucleotide binding]; DNA binding site 1288122006395 RNA-binding motif; other site 1288122006396 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1288122006397 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 1288122006398 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1288122006399 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1288122006400 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1288122006401 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1288122006402 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1288122006403 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1288122006404 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1288122006405 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1288122006406 FliG C-terminal domain; Region: FliG_C; pfam01706 1288122006407 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1288122006408 Flagellar assembly protein FliH; Region: FliH; pfam02108 1288122006409 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 1288122006410 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 1288122006411 Walker A motif/ATP binding site; other site 1288122006412 Walker B motif; other site 1288122006413 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1288122006414 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 1288122006415 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 1288122006416 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 1288122006417 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1288122006418 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1288122006419 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 1288122006420 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1288122006421 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1288122006422 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1288122006423 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1288122006424 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1288122006425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1288122006426 Peptidase M15; Region: Peptidase_M15_3; cl01194 1288122006427 murein L,D-transpeptidase; Provisional; Region: PRK10594 1288122006428 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1288122006429 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1288122006430 cell division protein MukB; Provisional; Region: mukB; PRK04863 1288122006431 P-loop containing region of AAA domain; Region: AAA_29; cl17516 1288122006432 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 1288122006433 condesin subunit E; Provisional; Region: PRK05256 1288122006434 condesin subunit F; Provisional; Region: PRK05260 1288122006435 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1288122006436 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122006437 S-adenosylmethionine binding site [chemical binding]; other site 1288122006438 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1288122006439 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1288122006440 putative active site [active] 1288122006441 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 1288122006442 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 1288122006443 active site 1288122006444 putative substrate binding pocket [chemical binding]; other site 1288122006445 xanthine permease; Region: pbuX; TIGR03173 1288122006446 hypothetical protein; Provisional; Region: PRK10593 1288122006447 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1288122006448 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1288122006449 Ligand binding site; other site 1288122006450 oligomer interface; other site 1288122006451 Trm112p-like protein; Region: Trm112p; cl01066 1288122006452 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122006453 DNA-binding site [nucleotide binding]; DNA binding site 1288122006454 RNA-binding motif; other site 1288122006455 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122006456 DNA-binding site [nucleotide binding]; DNA binding site 1288122006457 RNA-binding motif; other site 1288122006458 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1288122006459 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 1288122006460 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1288122006461 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1288122006462 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1288122006463 Walker A/P-loop; other site 1288122006464 ATP binding site [chemical binding]; other site 1288122006465 Q-loop/lid; other site 1288122006466 ABC transporter signature motif; other site 1288122006467 Walker B; other site 1288122006468 D-loop; other site 1288122006469 H-loop/switch region; other site 1288122006470 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1288122006471 Competence protein; Region: Competence; pfam03772 1288122006472 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1288122006473 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 1288122006474 IHF dimer interface [polypeptide binding]; other site 1288122006475 IHF - DNA interface [nucleotide binding]; other site 1288122006476 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1288122006477 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1288122006478 RNA binding site [nucleotide binding]; other site 1288122006479 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 1288122006480 RNA binding site [nucleotide binding]; other site 1288122006481 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1288122006482 RNA binding site [nucleotide binding]; other site 1288122006483 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 1288122006484 RNA binding site [nucleotide binding]; other site 1288122006485 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1288122006486 RNA binding site [nucleotide binding]; other site 1288122006487 cytidylate kinase; Provisional; Region: cmk; PRK00023 1288122006488 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 1288122006489 CMP-binding site; other site 1288122006490 The sites determining sugar specificity; other site 1288122006491 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1288122006492 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1288122006493 hinge; other site 1288122006494 active site 1288122006495 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1288122006496 homodimer interface [polypeptide binding]; other site 1288122006497 substrate-cofactor binding pocket; other site 1288122006498 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122006499 catalytic residue [active] 1288122006500 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 1288122006501 active site 1288122006502 homodimer interface [polypeptide binding]; other site 1288122006503 uncharacterized domain; Region: TIGR00702 1288122006504 YcaO-like family; Region: YcaO; pfam02624 1288122006505 formate transporter; Provisional; Region: PRK10805 1288122006506 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1288122006507 Pyruvate formate lyase 1; Region: PFL1; cd01678 1288122006508 coenzyme A binding site [chemical binding]; other site 1288122006509 active site 1288122006510 catalytic residues [active] 1288122006511 glycine loop; other site 1288122006512 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 1288122006513 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122006514 FeS/SAM binding site; other site 1288122006515 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1288122006516 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122006517 Protein of unknown function, DUF417; Region: DUF417; cl01162 1288122006518 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 1288122006519 catalytic residues [active] 1288122006520 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1288122006521 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1288122006522 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 1288122006523 putative MFS family transporter protein; Provisional; Region: PRK03633 1288122006524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122006525 putative substrate translocation pore; other site 1288122006526 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1288122006527 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1288122006528 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 1288122006529 DMSO reductase anchor subunit (DmsC); Region: DmsC; pfam04976 1288122006530 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1288122006531 4Fe-4S binding domain; Region: Fer4; cl02805 1288122006532 anaerobic dimethyl sulfoxide reductase subunit A; Provisional; Region: PRK14990 1288122006533 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 1288122006534 putative [Fe4-S4] binding site [ion binding]; other site 1288122006535 putative molybdopterin cofactor binding site [chemical binding]; other site 1288122006536 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 1288122006537 putative molybdopterin cofactor binding site; other site 1288122006538 seryl-tRNA synthetase; Provisional; Region: PRK05431 1288122006539 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1288122006540 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 1288122006541 dimer interface [polypeptide binding]; other site 1288122006542 active site 1288122006543 motif 1; other site 1288122006544 motif 2; other site 1288122006545 motif 3; other site 1288122006546 recombination factor protein RarA; Reviewed; Region: PRK13342 1288122006547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122006548 Walker A motif; other site 1288122006549 ATP binding site [chemical binding]; other site 1288122006550 Walker B motif; other site 1288122006551 arginine finger; other site 1288122006552 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1288122006553 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 1288122006554 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 1288122006555 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1288122006556 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1288122006557 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1288122006558 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1288122006559 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122006560 putative DNA binding site [nucleotide binding]; other site 1288122006561 putative Zn2+ binding site [ion binding]; other site 1288122006562 AsnC family; Region: AsnC_trans_reg; pfam01037 1288122006563 thioredoxin reductase; Provisional; Region: PRK10262 1288122006564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1288122006565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122006566 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 1288122006567 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1288122006568 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122006569 Walker A/P-loop; other site 1288122006570 ATP binding site [chemical binding]; other site 1288122006571 Q-loop/lid; other site 1288122006572 ABC transporter signature motif; other site 1288122006573 Walker B; other site 1288122006574 D-loop; other site 1288122006575 H-loop/switch region; other site 1288122006576 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 1288122006577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122006578 Walker A/P-loop; other site 1288122006579 ATP binding site [chemical binding]; other site 1288122006580 Q-loop/lid; other site 1288122006581 ABC transporter signature motif; other site 1288122006582 Walker B; other site 1288122006583 D-loop; other site 1288122006584 H-loop/switch region; other site 1288122006585 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1288122006586 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 1288122006587 rRNA binding site [nucleotide binding]; other site 1288122006588 predicted 30S ribosome binding site; other site 1288122006589 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1288122006590 Clp amino terminal domain; Region: Clp_N; pfam02861 1288122006591 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122006592 Walker A motif; other site 1288122006593 ATP binding site [chemical binding]; other site 1288122006594 Walker B motif; other site 1288122006595 arginine finger; other site 1288122006596 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122006597 Walker A motif; other site 1288122006598 ATP binding site [chemical binding]; other site 1288122006599 Walker B motif; other site 1288122006600 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1288122006601 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 1288122006602 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 1288122006603 DNA-binding site [nucleotide binding]; DNA binding site 1288122006604 RNA-binding motif; other site 1288122006605 Protein of unknown function (DUF535); Region: DUF535; pfam04393 1288122006606 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1288122006607 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1288122006608 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 1288122006609 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 1288122006610 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 1288122006611 putative active site [active] 1288122006612 putative metal-binding site [ion binding]; other site 1288122006613 Predicted membrane protein [Function unknown]; Region: COG2431 1288122006614 hybrid cluster protein; Provisional; Region: PRK05290 1288122006615 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122006616 ACS interaction site; other site 1288122006617 CODH interaction site; other site 1288122006618 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 1288122006619 hybrid metal cluster; other site 1288122006620 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 1288122006621 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1288122006622 FAD binding pocket [chemical binding]; other site 1288122006623 FAD binding motif [chemical binding]; other site 1288122006624 phosphate binding motif [ion binding]; other site 1288122006625 beta-alpha-beta structure motif; other site 1288122006626 NAD binding pocket [chemical binding]; other site 1288122006627 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122006628 catalytic loop [active] 1288122006629 iron binding site [ion binding]; other site 1288122006630 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 1288122006631 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122006632 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122006633 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 1288122006634 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122006635 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122006636 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122006637 Fimbrial protein; Region: Fimbrial; pfam00419 1288122006638 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1288122006639 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 1288122006640 tetramer interface [polypeptide binding]; other site 1288122006641 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122006642 catalytic residue [active] 1288122006643 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1288122006644 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 1288122006645 putative NAD(P) binding site [chemical binding]; other site 1288122006646 putative active site [active] 1288122006647 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 1288122006648 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1288122006649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122006650 NAD(P) binding site [chemical binding]; other site 1288122006651 active site 1288122006652 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1288122006653 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1288122006654 amidase catalytic site [active] 1288122006655 Zn binding residues [ion binding]; other site 1288122006656 substrate binding site [chemical binding]; other site 1288122006657 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1288122006658 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122006659 dimerization interface [polypeptide binding]; other site 1288122006660 DNA binding residues [nucleotide binding] 1288122006661 Fimbrial protein; Region: Fimbrial; cl01416 1288122006662 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122006663 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122006664 fimbrial outer membrane usher protein; Provisional; Region: PRK15217 1288122006665 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122006666 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122006667 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122006668 putative fimbrial biosynthesis regulatory protein; Provisional; Region: PRK15216 1288122006669 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 1288122006670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122006671 Walker A/P-loop; other site 1288122006672 ATP binding site [chemical binding]; other site 1288122006673 Q-loop/lid; other site 1288122006674 ABC transporter signature motif; other site 1288122006675 Walker B; other site 1288122006676 D-loop; other site 1288122006677 H-loop/switch region; other site 1288122006678 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1288122006679 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122006680 substrate binding pocket [chemical binding]; other site 1288122006681 membrane-bound complex binding site; other site 1288122006682 hinge residues; other site 1288122006683 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1288122006684 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122006685 dimer interface [polypeptide binding]; other site 1288122006686 conserved gate region; other site 1288122006687 putative PBP binding loops; other site 1288122006688 ABC-ATPase subunit interface; other site 1288122006689 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122006690 dimer interface [polypeptide binding]; other site 1288122006691 conserved gate region; other site 1288122006692 putative PBP binding loops; other site 1288122006693 ABC-ATPase subunit interface; other site 1288122006694 putative ABC transporter arginine-biding protein; Provisional; Region: PRK15007 1288122006695 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122006696 substrate binding pocket [chemical binding]; other site 1288122006697 membrane-bound complex binding site; other site 1288122006698 hinge residues; other site 1288122006699 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 1288122006700 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1288122006701 DNA binding site [nucleotide binding] 1288122006702 active site 1288122006703 23S rRNA (uracil-5-)-methyltransferase RumB; Region: meth_trns_rumB; TIGR02085 1288122006704 Protein of unknown function (DUF2593); Region: DUF2593; pfam10767 1288122006705 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 1288122006706 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 1288122006707 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 1288122006708 dimer interface [polypeptide binding]; other site 1288122006709 FMN binding site [chemical binding]; other site 1288122006710 NADPH bind site [chemical binding]; other site 1288122006711 Glutaredoxin (GRX) family; composed of GRX, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide...; Region: GRX_family; cd02066 1288122006712 GSH binding site [chemical binding]; other site 1288122006713 catalytic residues [active] 1288122006714 Putative inner membrane protein of Enterobacteriaceae; Region: YbjM; pfam11045 1288122006715 putative transporter; Provisional; Region: PRK04972 1288122006716 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 1288122006717 TrkA-C domain; Region: TrkA_C; pfam02080 1288122006718 TrkA-C domain; Region: TrkA_C; pfam02080 1288122006719 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1288122006720 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 1288122006721 Fimbrial protein; Region: Fimbrial; pfam00419 1288122006722 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1288122006723 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1288122006724 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122006725 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1288122006726 putative periplasmic fimbrial chaperone protein SteC; Provisional; Region: PRK15274 1288122006727 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122006728 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122006729 putative fimbrial outer membrane usher protein StfC; Provisional; Region: PRK15284 1288122006730 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122006731 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122006732 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122006733 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1288122006734 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 1288122006735 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 1288122006736 active site 1288122006737 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1288122006738 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 1288122006739 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1288122006740 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122006741 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 1288122006742 serine transporter; Region: stp; TIGR00814 1288122006743 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1288122006744 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1288122006745 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1288122006746 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1288122006747 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1288122006748 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1288122006749 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 1288122006750 substrate binding site [chemical binding]; other site 1288122006751 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122006752 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122006753 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1288122006754 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1288122006755 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1288122006756 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122006757 FeS/SAM binding site; other site 1288122006758 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1288122006759 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1288122006760 putative NAD(P) binding site [chemical binding]; other site 1288122006761 Peptidase family C69; Region: Peptidase_C69; pfam03577 1288122006762 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1288122006763 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1288122006764 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1288122006765 histidinol dehydrogenase; Region: hisD; TIGR00069 1288122006766 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 1288122006767 NAD binding site [chemical binding]; other site 1288122006768 dimerization interface [polypeptide binding]; other site 1288122006769 product binding site; other site 1288122006770 substrate binding site [chemical binding]; other site 1288122006771 zinc binding site [ion binding]; other site 1288122006772 catalytic residues [active] 1288122006773 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1288122006774 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122006775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122006776 homodimer interface [polypeptide binding]; other site 1288122006777 catalytic residue [active] 1288122006778 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1288122006779 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122006780 active site 1288122006781 motif I; other site 1288122006782 motif II; other site 1288122006783 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1288122006784 putative active site pocket [active] 1288122006785 4-fold oligomerization interface [polypeptide binding]; other site 1288122006786 metal binding residues [ion binding]; metal-binding site 1288122006787 3-fold/trimer interface [polypeptide binding]; other site 1288122006788 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1288122006789 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1288122006790 putative active site [active] 1288122006791 oxyanion strand; other site 1288122006792 catalytic triad [active] 1288122006793 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 1288122006794 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1288122006795 catalytic residues [active] 1288122006796 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 1288122006797 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1288122006798 substrate binding site [chemical binding]; other site 1288122006799 glutamase interaction surface [polypeptide binding]; other site 1288122006800 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1288122006801 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1288122006802 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 1288122006803 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 1288122006804 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 1288122006805 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 1288122006806 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 1288122006807 molybdopterin cofactor binding site [chemical binding]; other site 1288122006808 substrate binding site [chemical binding]; other site 1288122006809 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 1288122006810 molybdopterin cofactor binding site; other site 1288122006811 sugar efflux transporter B; Provisional; Region: PRK15011 1288122006812 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122006813 putative substrate translocation pore; other site 1288122006814 Flagellin N-methylase; Region: FliB; cl00497 1288122006815 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 1288122006816 aromatic amino acid transport protein; Region: araaP; TIGR00837 1288122006817 elongation factor P; Provisional; Region: PRK04542 1288122006818 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1288122006819 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 1288122006820 RNA binding site [nucleotide binding]; other site 1288122006821 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 1288122006822 RNA binding site [nucleotide binding]; other site 1288122006823 mannonate dehydratase; Provisional; Region: PRK03906 1288122006824 mannonate dehydratase; Region: uxuA; TIGR00695 1288122006825 D-mannonate oxidoreductase; Provisional; Region: PRK15037 1288122006826 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1288122006827 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1288122006828 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1288122006829 dimer interface [polypeptide binding]; other site 1288122006830 ligand binding site [chemical binding]; other site 1288122006831 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122006832 dimerization interface [polypeptide binding]; other site 1288122006833 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122006834 dimer interface [polypeptide binding]; other site 1288122006835 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1288122006836 putative CheW interface [polypeptide binding]; other site 1288122006837 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1288122006838 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1288122006839 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122006840 DNA-binding transcriptional repressor UxuR; Provisional; Region: PRK10225 1288122006841 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122006842 DNA-binding site [nucleotide binding]; DNA binding site 1288122006843 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1288122006844 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1288122006845 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1288122006846 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1288122006847 NlpC/P60 family; Region: NLPC_P60; pfam00877 1288122006848 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1288122006849 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 1288122006850 N-terminal domain of the phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]; Region: COG3925 1288122006851 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1288122006852 active site 1288122006853 P-loop; other site 1288122006854 phosphorylation site [posttranslational modification] 1288122006855 PTS system, fructose subfamily, IIC component; Region: PTS_IIC_fructo; TIGR01427 1288122006856 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1288122006857 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 1288122006858 putative substrate binding site [chemical binding]; other site 1288122006859 putative ATP binding site [chemical binding]; other site 1288122006860 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 1288122006861 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1288122006862 active site 1288122006863 phosphorylation site [posttranslational modification] 1288122006864 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1288122006865 dimerization domain swap beta strand [polypeptide binding]; other site 1288122006866 regulatory protein interface [polypeptide binding]; other site 1288122006867 active site 1288122006868 regulatory phosphorylation site [posttranslational modification]; other site 1288122006869 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_19; cd04678 1288122006870 nudix motif; other site 1288122006871 glutamine ABC transporter periplasmic protein; Reviewed; Region: glnH; PRK09495 1288122006872 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122006873 substrate binding pocket [chemical binding]; other site 1288122006874 membrane-bound complex binding site; other site 1288122006875 hinge residues; other site 1288122006876 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1288122006877 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122006878 dimer interface [polypeptide binding]; other site 1288122006879 conserved gate region; other site 1288122006880 putative PBP binding loops; other site 1288122006881 ABC-ATPase subunit interface; other site 1288122006882 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 1288122006883 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1288122006884 Walker A/P-loop; other site 1288122006885 ATP binding site [chemical binding]; other site 1288122006886 Q-loop/lid; other site 1288122006887 ABC transporter signature motif; other site 1288122006888 Walker B; other site 1288122006889 D-loop; other site 1288122006890 H-loop/switch region; other site 1288122006891 23S rRNA mA1618 methyltransferase; Provisional; Region: PRK11727 1288122006892 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 1288122006893 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1288122006894 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1288122006895 YejG-like protein; Region: YejG; cl08201 1288122006896 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1288122006897 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122006898 putative substrate translocation pore; other site 1288122006899 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 1288122006900 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122006901 RNA binding surface [nucleotide binding]; other site 1288122006902 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1288122006903 active site 1288122006904 uracil binding [chemical binding]; other site 1288122006905 probable metal-binding protein; Region: matur_matur; TIGR03853 1288122006906 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 1288122006907 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122006908 ATP binding site [chemical binding]; other site 1288122006909 putative Mg++ binding site [ion binding]; other site 1288122006910 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122006911 nucleotide binding region [chemical binding]; other site 1288122006912 ATP-binding site [chemical binding]; other site 1288122006913 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1288122006914 5S rRNA interface [nucleotide binding]; other site 1288122006915 CTC domain interface [polypeptide binding]; other site 1288122006916 L16 interface [polypeptide binding]; other site 1288122006917 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1288122006918 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1288122006919 hypothetical protein; Provisional; Region: PRK13689 1288122006920 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 1288122006921 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1288122006922 Sulfatase; Region: Sulfatase; cl17466 1288122006923 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122006924 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122006925 metal binding site [ion binding]; metal-binding site 1288122006926 active site 1288122006927 I-site; other site 1288122006928 enolase; Provisional; Region: eno; PRK00077 1288122006929 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1288122006930 metal binding site [ion binding]; metal-binding site 1288122006931 substrate binding pocket [chemical binding]; other site 1288122006932 dimer interface [polypeptide binding]; other site 1288122006933 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122006934 Ligand Binding Site [chemical binding]; other site 1288122006935 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1288122006936 DHH family; Region: DHH; pfam01368 1288122006937 DHHA2 domain; Region: DHHA2; pfam02833 1288122006938 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1288122006939 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122006940 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1288122006941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122006942 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 1288122006943 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1288122006944 ATP binding site [chemical binding]; other site 1288122006945 Mg++ binding site [ion binding]; other site 1288122006946 motif III; other site 1288122006947 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122006948 nucleotide binding region [chemical binding]; other site 1288122006949 ATP-binding site [chemical binding]; other site 1288122006950 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1288122006951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122006952 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1288122006953 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1288122006954 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122006955 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122006956 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1288122006957 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1288122006958 Walker A/P-loop; other site 1288122006959 ATP binding site [chemical binding]; other site 1288122006960 Q-loop/lid; other site 1288122006961 ABC transporter signature motif; other site 1288122006962 Walker B; other site 1288122006963 D-loop; other site 1288122006964 H-loop/switch region; other site 1288122006965 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1288122006966 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1288122006967 Walker A/P-loop; other site 1288122006968 ATP binding site [chemical binding]; other site 1288122006969 Q-loop/lid; other site 1288122006970 ABC transporter signature motif; other site 1288122006971 Walker B; other site 1288122006972 D-loop; other site 1288122006973 H-loop/switch region; other site 1288122006974 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1288122006975 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1288122006976 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1288122006977 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1288122006978 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional; Region: PRK10618 1288122006979 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122006980 ATP binding site [chemical binding]; other site 1288122006981 Mg2+ binding site [ion binding]; other site 1288122006982 G-X-G motif; other site 1288122006983 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1288122006984 putative binding surface; other site 1288122006985 active site 1288122006986 transcriptional regulator RcsB; Provisional; Region: PRK10840 1288122006987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122006988 active site 1288122006989 phosphorylation site [posttranslational modification] 1288122006990 intermolecular recognition site; other site 1288122006991 dimerization interface [polypeptide binding]; other site 1288122006992 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122006993 DNA binding residues [nucleotide binding] 1288122006994 dimerization interface [polypeptide binding]; other site 1288122006995 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional; Region: PRK10841 1288122006996 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122006997 dimer interface [polypeptide binding]; other site 1288122006998 phosphorylation site [posttranslational modification] 1288122006999 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122007000 ATP binding site [chemical binding]; other site 1288122007001 Mg2+ binding site [ion binding]; other site 1288122007002 G-X-G motif; other site 1288122007003 RcsC Alpha-Beta-Loop (ABL); Region: RcsC; pfam09456 1288122007004 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122007005 active site 1288122007006 phosphorylation site [posttranslational modification] 1288122007007 intermolecular recognition site; other site 1288122007008 dimerization interface [polypeptide binding]; other site 1288122007009 DNA gyrase subunit A; Validated; Region: PRK05560 1288122007010 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 1288122007011 CAP-like domain; other site 1288122007012 active site 1288122007013 primary dimer interface [polypeptide binding]; other site 1288122007014 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007015 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007016 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007017 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007018 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007019 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1288122007020 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1288122007021 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122007022 S-adenosylmethionine binding site [chemical binding]; other site 1288122007023 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1288122007024 ATP cone domain; Region: ATP-cone; pfam03477 1288122007025 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1288122007026 active site 1288122007027 dimer interface [polypeptide binding]; other site 1288122007028 catalytic residues [active] 1288122007029 effector binding site; other site 1288122007030 R2 peptide binding site; other site 1288122007031 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1288122007032 dimer interface [polypeptide binding]; other site 1288122007033 putative radical transfer pathway; other site 1288122007034 diiron center [ion binding]; other site 1288122007035 tyrosyl radical; other site 1288122007036 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122007037 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1288122007038 catalytic loop [active] 1288122007039 iron binding site [ion binding]; other site 1288122007040 putative oxidoreductase; Provisional; Region: PRK09939 1288122007041 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1288122007042 putative molybdopterin cofactor binding site [chemical binding]; other site 1288122007043 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1288122007044 putative molybdopterin cofactor binding site; other site 1288122007045 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1288122007046 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1288122007047 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1288122007048 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 1288122007049 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1288122007050 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 1288122007051 MoaE homodimer interface [polypeptide binding]; other site 1288122007052 MoaD interaction [polypeptide binding]; other site 1288122007053 active site residues [active] 1288122007054 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1288122007055 MoaE interaction surface [polypeptide binding]; other site 1288122007056 MoeB interaction surface [polypeptide binding]; other site 1288122007057 thiocarboxylated glycine; other site 1288122007058 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 1288122007059 trimer interface [polypeptide binding]; other site 1288122007060 dimer interface [polypeptide binding]; other site 1288122007061 putative active site [active] 1288122007062 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1288122007063 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122007064 FeS/SAM binding site; other site 1288122007065 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1288122007066 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 1288122007067 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1288122007068 phosphate binding site [ion binding]; other site 1288122007069 putative substrate binding pocket [chemical binding]; other site 1288122007070 dimer interface [polypeptide binding]; other site 1288122007071 hypothetical protein; Provisional; Region: PRK03673 1288122007072 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1288122007073 putative MPT binding site; other site 1288122007074 tyrosine transporter TyrP; Provisional; Region: PRK15132 1288122007075 aromatic amino acid transport protein; Region: araaP; TIGR00837 1288122007076 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1288122007077 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1288122007078 active site 1288122007079 HIGH motif; other site 1288122007080 dimer interface [polypeptide binding]; other site 1288122007081 KMSKS motif; other site 1288122007082 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1288122007083 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 1288122007084 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 1288122007085 acyl-activating enzyme (AAE) consensus motif; other site 1288122007086 putative AMP binding site [chemical binding]; other site 1288122007087 putative active site [active] 1288122007088 putative CoA binding site [chemical binding]; other site 1288122007089 O-succinylbenzoate synthase; Provisional; Region: PRK05105 1288122007090 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 1288122007091 active site 1288122007092 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1288122007093 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 1288122007094 substrate binding site [chemical binding]; other site 1288122007095 oxyanion hole (OAH) forming residues; other site 1288122007096 trimer interface [polypeptide binding]; other site 1288122007097 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 1288122007098 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 1288122007099 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 1288122007100 dimer interface [polypeptide binding]; other site 1288122007101 tetramer interface [polypeptide binding]; other site 1288122007102 PYR/PP interface [polypeptide binding]; other site 1288122007103 TPP binding site [chemical binding]; other site 1288122007104 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 1288122007105 TPP-binding site; other site 1288122007106 menaquinone-specific isochorismate synthase; Provisional; Region: PRK15012 1288122007107 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1288122007108 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 1288122007109 Peptidase family C69; Region: Peptidase_C69; pfam03577 1288122007110 hydrogenase 2-specific chaperone; Provisional; Region: PRK10465 1288122007111 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1288122007112 nickel binding site [ion binding]; other site 1288122007113 putative substrate-binding site; other site 1288122007114 hydrogenase 2 large subunit; Provisional; Region: PRK10467 1288122007115 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1288122007116 putative hydrogenase 2 b cytochrome subunit; Provisional; Region: PRK10881 1288122007117 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 1288122007118 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1288122007119 hydrogenase 2 small subunit; Provisional; Region: PRK10468 1288122007120 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1288122007121 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK09822 1288122007122 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1288122007123 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 1288122007124 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 1288122007125 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 1288122007126 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1288122007127 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1288122007128 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1288122007129 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1288122007130 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1288122007131 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1288122007132 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1288122007133 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1288122007134 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1288122007135 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 1288122007136 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1288122007137 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122007138 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122007139 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1288122007140 NADH dehydrogenase subunit G; Validated; Region: PRK08166 1288122007141 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122007142 catalytic loop [active] 1288122007143 iron binding site [ion binding]; other site 1288122007144 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1288122007145 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 1288122007146 [4Fe-4S] binding site [ion binding]; other site 1288122007147 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 1288122007148 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 1288122007149 SLBB domain; Region: SLBB; pfam10531 1288122007150 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1288122007151 NADH dehydrogenase subunit E; Validated; Region: PRK07539 1288122007152 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 1288122007153 putative dimer interface [polypeptide binding]; other site 1288122007154 [2Fe-2S] cluster binding site [ion binding]; other site 1288122007155 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 1288122007156 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1288122007157 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1288122007158 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1288122007159 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1288122007160 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 1288122007161 putative dimerization interface [polypeptide binding]; other site 1288122007162 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1288122007163 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1288122007164 Rhodanese Homology Domain; Region: RHOD; smart00450 1288122007165 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1288122007166 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 1288122007167 active site residue [active] 1288122007168 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 1288122007169 active site residue [active] 1288122007170 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1288122007171 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1288122007172 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1288122007173 aminotransferase AlaT; Validated; Region: PRK09265 1288122007174 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122007175 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122007176 homodimer interface [polypeptide binding]; other site 1288122007177 catalytic residue [active] 1288122007178 5'-nucleotidase; Provisional; Region: PRK03826 1288122007179 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1288122007180 TrkA-C domain; Region: TrkA_C; pfam02080 1288122007181 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1288122007182 TrkA-C domain; Region: TrkA_C; pfam02080 1288122007183 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1288122007184 putative phosphatase; Provisional; Region: PRK11587 1288122007185 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122007186 active site 1288122007187 motif I; other site 1288122007188 motif II; other site 1288122007189 hypothetical protein; Validated; Region: PRK05445 1288122007190 hypothetical protein; Provisional; Region: PRK01816 1288122007191 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 1288122007192 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 1288122007193 propionate/acetate kinase; Provisional; Region: PRK12379 1288122007194 phosphate acetyltransferase; Reviewed; Region: PRK05632 1288122007195 DRTGG domain; Region: DRTGG; pfam07085 1288122007196 phosphate acetyltransferase; Region: pta; TIGR00651 1288122007197 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1288122007198 DNA binding site [nucleotide binding] 1288122007199 Int/Topo IB signature motif; other site 1288122007200 active site 1288122007201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1288122007202 InsA N-terminal domain; Region: Zn_Tnp_IS1; pfam03811 1288122007203 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 1288122007204 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 1288122007205 Protein of unknown function (DUF3747); Region: DUF3747; pfam12565 1288122007206 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1288122007207 active site residue [active] 1288122007208 NUDIX hydrolase YfcD; Provisional; Region: PRK15393 1288122007209 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1288122007210 nudix motif; other site 1288122007211 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1288122007212 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1288122007213 active site 1288122007214 metal binding site [ion binding]; metal-binding site 1288122007215 homotetramer interface [polypeptide binding]; other site 1288122007216 glutathione S-transferase; Provisional; Region: PRK15113 1288122007217 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1288122007218 C-terminal domain interface [polypeptide binding]; other site 1288122007219 GSH binding site (G-site) [chemical binding]; other site 1288122007220 dimer interface [polypeptide binding]; other site 1288122007221 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 1288122007222 N-terminal domain interface [polypeptide binding]; other site 1288122007223 putative dimer interface [polypeptide binding]; other site 1288122007224 putative substrate binding pocket (H-site) [chemical binding]; other site 1288122007225 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1288122007226 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1288122007227 C-terminal domain interface [polypeptide binding]; other site 1288122007228 GSH binding site (G-site) [chemical binding]; other site 1288122007229 dimer interface [polypeptide binding]; other site 1288122007230 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1288122007231 N-terminal domain interface [polypeptide binding]; other site 1288122007232 putative dimer interface [polypeptide binding]; other site 1288122007233 active site 1288122007234 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1288122007235 homooctamer interface [polypeptide binding]; other site 1288122007236 active site 1288122007237 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1288122007238 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 1288122007239 putative NAD(P) binding site [chemical binding]; other site 1288122007240 putative active site [active] 1288122007241 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1288122007242 classical (c) SDRs; Region: SDR_c; cd05233 1288122007243 NAD(P) binding site [chemical binding]; other site 1288122007244 active site 1288122007245 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1288122007246 Flavoprotein; Region: Flavoprotein; pfam02441 1288122007247 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1288122007248 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1288122007249 active site 1288122007250 tetramer interface [polypeptide binding]; other site 1288122007251 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122007252 active site 1288122007253 Colicin V production protein; Region: Colicin_V; cl00567 1288122007254 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1288122007255 cell division protein DedD; Provisional; Region: PRK11633 1288122007256 Sporulation related domain; Region: SPOR; pfam05036 1288122007257 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1288122007258 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1288122007259 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1288122007260 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1288122007261 hypothetical protein; Provisional; Region: PRK10847 1288122007262 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1288122007263 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1288122007264 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1288122007265 dimerization interface 3.5A [polypeptide binding]; other site 1288122007266 active site 1288122007267 putative semialdehyde dehydrogenase; Provisional; Region: PRK08040 1288122007268 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1288122007269 erythronate-4-phosphate dehydrogenase PdxB; Provisional; Region: PRK15438 1288122007270 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1288122007271 ligand binding site [chemical binding]; other site 1288122007272 NAD binding site [chemical binding]; other site 1288122007273 catalytic site [active] 1288122007274 homodimer interface [polypeptide binding]; other site 1288122007275 Domain of unknown function (DUF4186); Region: DUF4186; pfam13811 1288122007276 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122007277 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1288122007278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122007279 S-adenosylmethionine binding site [chemical binding]; other site 1288122007280 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1288122007281 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1288122007282 dimer interface [polypeptide binding]; other site 1288122007283 active site 1288122007284 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1288122007285 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1288122007286 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 1288122007287 YfcL protein; Region: YfcL; pfam08891 1288122007288 Protein of unknown function, DUF462; Region: DUF462; cl01190 1288122007289 hypothetical protein; Provisional; Region: PRK10621 1288122007290 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1288122007291 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 1288122007292 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 1288122007293 NlpC/P60 family; Region: NLPC_P60; cl17555 1288122007294 Protein of unknown function (DUF770); Region: DUF770; pfam05591 1288122007295 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 1288122007296 Protein of unknown function (DUF877); Region: DUF877; pfam05943 1288122007297 Protein of unknown function (DUF796); Region: DUF796; pfam05638 1288122007298 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 1288122007299 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 1288122007300 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 1288122007301 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 1288122007302 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 1288122007303 Clp amino terminal domain; Region: Clp_N; pfam02861 1288122007304 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122007305 Walker A motif; other site 1288122007306 ATP binding site [chemical binding]; other site 1288122007307 Walker B motif; other site 1288122007308 arginine finger; other site 1288122007309 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122007310 ATP binding site [chemical binding]; other site 1288122007311 Walker B motif; other site 1288122007312 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1288122007313 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 1288122007314 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 1288122007315 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 1288122007316 PAAR motif; Region: PAAR_motif; cl15808 1288122007317 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 1288122007318 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 1288122007319 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 1288122007320 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 1288122007321 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 1288122007322 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 1288122007323 Predicted membrane protein (DUF2231); Region: DUF2231; cl01730 1288122007324 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 1288122007325 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 1288122007326 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1288122007327 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1288122007328 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1288122007329 Tetramer interface [polypeptide binding]; other site 1288122007330 active site 1288122007331 FMN-binding site [chemical binding]; other site 1288122007332 HemK family putative methylases; Region: hemK_fam; TIGR00536 1288122007333 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122007334 S-adenosylmethionine binding site [chemical binding]; other site 1288122007335 hypothetical protein; Provisional; Region: PRK04946 1288122007336 Smr domain; Region: Smr; pfam01713 1288122007337 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1288122007338 catalytic core [active] 1288122007339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3691 1288122007340 long-chain fatty acid outer membrane transporter; Provisional; Region: PRK10716 1288122007341 ABC transporter outer membrane lipoprotein; Provisional; Region: PRK15091 1288122007342 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1288122007343 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1288122007344 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1288122007345 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1288122007346 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1288122007347 catalytic residues [active] 1288122007348 central insert; other site 1288122007349 c-type cytochrome biogenesis protein CcmF; Region: nrfE; TIGR00353 1288122007350 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1288122007351 Heme exporter protein D (CcmD); Region: CcmD; cl11475 1288122007352 heme exporter protein CcmC; Region: ccmC; TIGR01191 1288122007353 heme exporter protein CcmB; Region: ccmB; TIGR01190 1288122007354 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1288122007355 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1288122007356 Walker A/P-loop; other site 1288122007357 ATP binding site [chemical binding]; other site 1288122007358 Q-loop/lid; other site 1288122007359 ABC transporter signature motif; other site 1288122007360 Walker B; other site 1288122007361 D-loop; other site 1288122007362 H-loop/switch region; other site 1288122007363 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1288122007364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122007365 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122007366 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122007367 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1288122007368 Prophage tail fibre N-terminal; Region: phage_tail_N; pfam08400 1288122007369 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1288122007370 Phage-related protein, tail component [Function unknown]; Region: COG4733 1288122007371 Putative phage tail protein; Region: Phage-tail_3; pfam13550 1288122007372 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1288122007373 Interdomain contacts; other site 1288122007374 Cytokine receptor motif; other site 1288122007375 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 1288122007376 Interdomain contacts; other site 1288122007377 Cytokine receptor motif; other site 1288122007378 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 1288122007379 Phage-related protein, tail component [Function unknown]; Region: COG4723 1288122007380 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 1288122007381 MPN+ (JAMM) motif; other site 1288122007382 Zinc-binding site [ion binding]; other site 1288122007383 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1288122007384 NlpC/P60 family; Region: NLPC_P60; cl17555 1288122007385 Phage-related protein [Function unknown]; Region: gp18; COG4672 1288122007386 Phage minor tail protein; Region: Phage_min_tail; pfam05939 1288122007387 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 1288122007388 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 1288122007389 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 1288122007390 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 1288122007391 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 1288122007392 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1288122007393 oligomerization interface [polypeptide binding]; other site 1288122007394 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 1288122007395 Phage capsid family; Region: Phage_capsid; pfam05065 1288122007396 Clp protease; Region: CLP_protease; pfam00574 1288122007397 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 1288122007398 oligomer interface [polypeptide binding]; other site 1288122007399 active site residues [active] 1288122007400 Phage-related protein [Function unknown]; Region: COG4695 1288122007401 Phage portal protein; Region: Phage_portal; pfam04860 1288122007402 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 1288122007403 Phage terminase, small subunit; Region: Terminase_4; pfam05119 1288122007404 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 1288122007405 active site 1288122007406 Zinc knuckle; Region: zf-CCHC_4; pfam14392 1288122007407 AntA/AntB antirepressor; Region: AntA; pfam08346 1288122007408 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1288122007409 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1288122007410 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1288122007411 Protein of unknown function (DUF754); Region: DUF754; pfam05449 1288122007412 Protein of unknown function (DUF968); Region: DUF968; pfam06147 1288122007413 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1288122007414 KilA-N domain; Region: KilA-N; pfam04383 1288122007415 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 1288122007416 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; pfam05869 1288122007417 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1288122007418 Helix-turn-helix; Region: HTH_3; pfam01381 1288122007419 sequence-specific DNA binding site [nucleotide binding]; other site 1288122007420 salt bridge; other site 1288122007421 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1288122007422 non-specific DNA binding site [nucleotide binding]; other site 1288122007423 salt bridge; other site 1288122007424 Predicted transcriptional regulator [Transcription]; Region: COG2932 1288122007425 sequence-specific DNA binding site [nucleotide binding]; other site 1288122007426 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1288122007427 Catalytic site [active] 1288122007428 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1288122007429 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 1288122007430 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1288122007431 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 1288122007432 integrase; Provisional; Region: PRK09692 1288122007433 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1288122007434 active site 1288122007435 Int/Topo IB signature motif; other site 1288122007436 integrase; Provisional; Region: PRK09692 1288122007437 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1288122007438 active site 1288122007439 Int/Topo IB signature motif; other site 1288122007440 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 1288122007441 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 1288122007442 putative active site [active] 1288122007443 putative NTP binding site [chemical binding]; other site 1288122007444 putative nucleic acid binding site [nucleotide binding]; other site 1288122007445 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 1288122007446 Integrase core domain; Region: rve; pfam00665 1288122007447 Integrase core domain; Region: rve_3; pfam13683 1288122007448 MobA/MobL family; Region: MobA_MobL; pfam03389 1288122007449 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 1288122007450 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 1288122007451 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 1288122007452 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1288122007453 ImpA domain protein; Region: DUF3702; pfam12486 1288122007454 Transposase; Region: HTH_Tnp_1; cl17663 1288122007455 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 1288122007456 transcriptional regulator protein; Region: phnR; TIGR03337 1288122007457 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122007458 DNA-binding site [nucleotide binding]; DNA binding site 1288122007459 UTRA domain; Region: UTRA; cl17743 1288122007460 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1288122007461 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122007462 putative substrate translocation pore; other site 1288122007463 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 1288122007464 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122007465 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122007466 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122007467 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122007468 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 1288122007469 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1288122007470 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122007471 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1288122007472 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1288122007473 dimer interface [polypeptide binding]; other site 1288122007474 PYR/PP interface [polypeptide binding]; other site 1288122007475 TPP binding site [chemical binding]; other site 1288122007476 substrate binding site [chemical binding]; other site 1288122007477 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 1288122007478 Domain of unknown function; Region: EKR; pfam10371 1288122007479 4Fe-4S binding domain; Region: Fer4_6; pfam12837 1288122007480 4Fe-4S binding domain; Region: Fer4; pfam00037 1288122007481 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1288122007482 TPP-binding site [chemical binding]; other site 1288122007483 dimer interface [polypeptide binding]; other site 1288122007484 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 1288122007485 active site residue [active] 1288122007486 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1288122007487 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122007488 dimerization interface [polypeptide binding]; other site 1288122007489 putative DNA binding site [nucleotide binding]; other site 1288122007490 putative Zn2+ binding site [ion binding]; other site 1288122007491 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1288122007492 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122007493 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122007494 catalytic residue [active] 1288122007495 carbon starvation protein A; Provisional; Region: PRK15015 1288122007496 Carbon starvation protein CstA; Region: CstA; pfam02554 1288122007497 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1288122007498 Uncharacterized small protein [Function unknown]; Region: COG2879 1288122007499 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1288122007500 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122007501 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1288122007502 leucine export protein LeuE; Provisional; Region: PRK10958 1288122007503 DNA-binding transcriptional regulator SoxS; Provisional; Region: PRK10219 1288122007504 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122007505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122007506 Serine protease inhibitor ecotin [General function prediction only]; Region: Eco; COG4574 1288122007507 secondary substrate binding site; other site 1288122007508 primary substrate binding site; other site 1288122007509 inhibition loop; other site 1288122007510 dimerization interface [polypeptide binding]; other site 1288122007511 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1288122007512 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122007513 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122007514 Walker A/P-loop; other site 1288122007515 ATP binding site [chemical binding]; other site 1288122007516 ABC transporter signature motif; other site 1288122007517 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122007518 Walker B; other site 1288122007519 ABC transporter; Region: ABC_tran_2; pfam12848 1288122007520 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122007521 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 1288122007522 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122007523 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122007524 dimerization interface [polypeptide binding]; other site 1288122007525 methyl-accepting protein IV; Provisional; Region: PRK09793 1288122007526 HAMP domain; Region: HAMP; pfam00672 1288122007527 dimerization interface [polypeptide binding]; other site 1288122007528 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122007529 dimer interface [polypeptide binding]; other site 1288122007530 putative CheW interface [polypeptide binding]; other site 1288122007531 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 1288122007532 active site 1288122007533 Oligogalacturonate-specific porin protein (KdgM); Region: KdgM; cl11629 1288122007534 DJ-1 family protein; Region: not_thiJ; TIGR01383 1288122007535 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1288122007536 conserved cys residue [active] 1288122007537 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1288122007538 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 1288122007539 intersubunit interface [polypeptide binding]; other site 1288122007540 active site 1288122007541 zinc binding site [ion binding]; other site 1288122007542 Na+ binding site [ion binding]; other site 1288122007543 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 1288122007544 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1288122007545 Sulfatase; Region: Sulfatase; pfam00884 1288122007546 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 1288122007547 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122007548 FeS/SAM binding site; other site 1288122007549 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 1288122007550 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1288122007551 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1288122007552 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1288122007553 active site 1288122007554 dimer interface [polypeptide binding]; other site 1288122007555 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1288122007556 active pocket/dimerization site; other site 1288122007557 active site 1288122007558 phosphorylation site [posttranslational modification] 1288122007559 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IID [Carbohydrate transport and metabolism]; Region: ManZ; COG3716 1288122007560 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]; Region: ManY; COG3715 1288122007561 PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_man; cd00001 1288122007562 active site 1288122007563 phosphorylation site [posttranslational modification] 1288122007564 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1288122007565 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1288122007566 dimer interface [polypeptide binding]; other site 1288122007567 active site 1288122007568 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 1288122007569 putative active site [active] 1288122007570 tagatose 6-phosphate aldolase subunit KbaZ; Provisional; Region: PRK15458 1288122007571 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1288122007572 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1288122007573 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122007574 Protein of unknown function (DUF808); Region: DUF808; pfam05661 1288122007575 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 1288122007576 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1288122007577 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1288122007578 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 1288122007579 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 1288122007580 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1288122007581 FMN binding site [chemical binding]; other site 1288122007582 active site 1288122007583 catalytic residues [active] 1288122007584 substrate binding site [chemical binding]; other site 1288122007585 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 1288122007586 excinuclease ABC subunit B; Provisional; Region: PRK05298 1288122007587 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122007588 ATP binding site [chemical binding]; other site 1288122007589 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122007590 nucleotide binding region [chemical binding]; other site 1288122007591 ATP-binding site [chemical binding]; other site 1288122007592 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1288122007593 UvrB/uvrC motif; Region: UVR; pfam02151 1288122007594 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1288122007595 AAA domain; Region: AAA_26; pfam13500 1288122007596 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1288122007597 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122007598 S-adenosylmethionine binding site [chemical binding]; other site 1288122007599 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1288122007600 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1288122007601 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122007602 catalytic residue [active] 1288122007603 biotin synthase; Provisional; Region: PRK15108 1288122007604 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122007605 FeS/SAM binding site; other site 1288122007606 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1288122007607 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1288122007608 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1288122007609 inhibitor-cofactor binding pocket; inhibition site 1288122007610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122007611 catalytic residue [active] 1288122007612 pyridoxal phosphate (PLP) phosphatase; Provisional; Region: PRK10530 1288122007613 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 1288122007614 active site 1288122007615 motif I; other site 1288122007616 motif II; other site 1288122007617 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122007618 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 1288122007619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122007620 Walker A/P-loop; other site 1288122007621 ATP binding site [chemical binding]; other site 1288122007622 Q-loop/lid; other site 1288122007623 ABC transporter signature motif; other site 1288122007624 Walker B; other site 1288122007625 D-loop; other site 1288122007626 H-loop/switch region; other site 1288122007627 TOBE domain; Region: TOBE; cl01440 1288122007628 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1288122007629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122007630 dimer interface [polypeptide binding]; other site 1288122007631 conserved gate region; other site 1288122007632 putative PBP binding loops; other site 1288122007633 ABC-ATPase subunit interface; other site 1288122007634 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 1288122007635 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1288122007636 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1288122007637 putative active site [active] 1288122007638 Protein of unknown function (DUF2592); Region: DUF2592; pfam10766 1288122007639 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 1288122007640 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 1288122007641 molybdenum-pterin binding domain; Region: Mop; TIGR00638 1288122007642 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 1288122007643 CAAX protease self-immunity; Region: Abi; pfam02517 1288122007644 UDP-galactose-4-epimerase; Provisional; Region: PRK10675 1288122007645 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1288122007646 NAD binding site [chemical binding]; other site 1288122007647 homodimer interface [polypeptide binding]; other site 1288122007648 active site 1288122007649 substrate binding site [chemical binding]; other site 1288122007650 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 1288122007651 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 1288122007652 dimer interface [polypeptide binding]; other site 1288122007653 active site 1288122007654 galactokinase; Provisional; Region: PRK05101 1288122007655 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1288122007656 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1288122007657 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1288122007658 active site 1288122007659 catalytic residues [active] 1288122007660 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1288122007661 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1288122007662 transmembrane helices; other site 1288122007663 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1288122007664 catalytic core [active] 1288122007665 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1288122007666 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 1288122007667 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1288122007668 tol-pal system protein YbgF; Provisional; Region: PRK10803 1288122007669 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1288122007670 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1288122007671 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1288122007672 ligand binding site [chemical binding]; other site 1288122007673 translocation protein TolB; Provisional; Region: tolB; PRK03629 1288122007674 TolB amino-terminal domain; Region: TolB_N; pfam04052 1288122007675 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1288122007676 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1288122007677 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1288122007678 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1288122007679 TolA C-terminal; Region: TolA; pfam06519 1288122007680 colicin uptake protein TolR; Provisional; Region: PRK11024 1288122007681 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1288122007682 colicin uptake protein TolQ; Provisional; Region: PRK10801 1288122007683 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1288122007684 active site 1288122007685 hypothetical protein; Provisional; Region: PRK10588 1288122007686 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 1288122007687 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1288122007688 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1288122007689 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1288122007690 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1288122007691 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1288122007692 CoA binding domain; Region: CoA_binding; pfam02629 1288122007693 CoA-ligase; Region: Ligase_CoA; pfam00549 1288122007694 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1288122007695 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1288122007696 CoA-ligase; Region: Ligase_CoA; pfam00549 1288122007697 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1288122007698 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 1288122007699 E3 interaction surface; other site 1288122007700 lipoyl attachment site [posttranslational modification]; other site 1288122007701 e3 binding domain; Region: E3_binding; pfam02817 1288122007702 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1288122007703 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1288122007704 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 1288122007705 TPP-binding site [chemical binding]; other site 1288122007706 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1288122007707 PYR/PP interface [polypeptide binding]; other site 1288122007708 dimer interface [polypeptide binding]; other site 1288122007709 TPP binding site [chemical binding]; other site 1288122007710 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1288122007711 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1288122007712 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1288122007713 L-aspartate oxidase; Provisional; Region: PRK06175 1288122007714 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1288122007715 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 1288122007716 SdhC subunit interface [polypeptide binding]; other site 1288122007717 proximal heme binding site [chemical binding]; other site 1288122007718 cardiolipin binding site; other site 1288122007719 Iron-sulfur protein interface; other site 1288122007720 proximal quinone binding site [chemical binding]; other site 1288122007721 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1288122007722 Iron-sulfur protein interface; other site 1288122007723 proximal quinone binding site [chemical binding]; other site 1288122007724 SdhD (CybS) interface [polypeptide binding]; other site 1288122007725 proximal heme binding site [chemical binding]; other site 1288122007726 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1288122007727 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1288122007728 dimer interface [polypeptide binding]; other site 1288122007729 active site 1288122007730 citrylCoA binding site [chemical binding]; other site 1288122007731 NADH binding [chemical binding]; other site 1288122007732 cationic pore residues; other site 1288122007733 oxalacetate/citrate binding site [chemical binding]; other site 1288122007734 coenzyme A binding site [chemical binding]; other site 1288122007735 catalytic triad [active] 1288122007736 endonuclease VIII; Provisional; Region: PRK10445 1288122007737 N-terminal domain of Escherichia coli Nei/endonuclease VIII and related DNA glycosylases; Region: EcNei-like_N; cd08965 1288122007738 DNA binding site [nucleotide binding] 1288122007739 catalytic residue [active] 1288122007740 putative catalytic residues [active] 1288122007741 H2TH interface [polypeptide binding]; other site 1288122007742 intercalation triad [nucleotide binding]; other site 1288122007743 substrate specificity determining residue; other site 1288122007744 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1288122007745 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1288122007746 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1288122007747 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1288122007748 hypothetical protein; Provisional; Region: PRK10220 1288122007749 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1288122007750 PhnA protein; Region: PhnA; pfam03831 1288122007751 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1288122007752 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122007753 DNA binding residues [nucleotide binding] 1288122007754 dimerization interface [polypeptide binding]; other site 1288122007755 Autoinducer synthetase; Region: Autoind_synth; pfam00765 1288122007756 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1288122007757 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1288122007758 cAMP phosphodiesterases class-II; Region: PDEase_II; cl17776 1288122007759 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1288122007760 DNA photolyase; Region: DNA_photolyase; pfam00875 1288122007761 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1288122007762 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1288122007763 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1288122007764 Protein of unknown function (DUF2517); Region: DUF2517; pfam10725 1288122007765 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 1288122007766 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 1288122007767 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1288122007768 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 1288122007769 sensor protein KdpD; Provisional; Region: PRK10490 1288122007770 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 1288122007771 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 1288122007772 Ligand Binding Site [chemical binding]; other site 1288122007773 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 1288122007774 GAF domain; Region: GAF_3; pfam13492 1288122007775 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122007776 dimer interface [polypeptide binding]; other site 1288122007777 phosphorylation site [posttranslational modification] 1288122007778 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122007779 ATP binding site [chemical binding]; other site 1288122007780 Mg2+ binding site [ion binding]; other site 1288122007781 G-X-G motif; other site 1288122007782 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 1288122007783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122007784 active site 1288122007785 phosphorylation site [posttranslational modification] 1288122007786 intermolecular recognition site; other site 1288122007787 dimerization interface [polypeptide binding]; other site 1288122007788 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122007789 DNA binding site [nucleotide binding] 1288122007790 phosphoglucomutase; Validated; Region: PRK07564 1288122007791 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 1288122007792 active site 1288122007793 substrate binding site [chemical binding]; other site 1288122007794 metal binding site [ion binding]; metal-binding site 1288122007795 replication initiation regulator SeqA; Provisional; Region: PRK11187 1288122007796 acyl-CoA esterase; Provisional; Region: PRK10673 1288122007797 LexA regulated protein; Provisional; Region: PRK11675 1288122007798 flavodoxin FldA; Validated; Region: PRK09267 1288122007799 ferric uptake regulator; Provisional; Region: fur; PRK09462 1288122007800 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1288122007801 metal binding site 2 [ion binding]; metal-binding site 1288122007802 putative DNA binding helix; other site 1288122007803 metal binding site 1 [ion binding]; metal-binding site 1288122007804 dimer interface [polypeptide binding]; other site 1288122007805 structural Zn2+ binding site [ion binding]; other site 1288122007806 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 1288122007807 N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]; Region: Chb; COG3525 1288122007808 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 1288122007809 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 1288122007810 active site 1288122007811 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 1288122007812 YbfN-like lipoprotein; Region: YbfN; pfam13982 1288122007813 outer membrane porin, OprD family; Region: OprD; pfam03573 1288122007814 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1288122007815 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1288122007816 active site 1288122007817 HIGH motif; other site 1288122007818 nucleotide binding site [chemical binding]; other site 1288122007819 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1288122007820 KMSKS motif; other site 1288122007821 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1288122007822 PTS system N-acetyl glucosamine specific transporter subunits IIABC; Provisional; Region: PRK10255 1288122007823 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 1288122007824 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 1288122007825 active site turn [active] 1288122007826 phosphorylation site [posttranslational modification] 1288122007827 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 1288122007828 HPr interaction site; other site 1288122007829 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1288122007830 active site 1288122007831 phosphorylation site [posttranslational modification] 1288122007832 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1288122007833 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 1288122007834 active site 1288122007835 trimer interface [polypeptide binding]; other site 1288122007836 allosteric site; other site 1288122007837 active site lid [active] 1288122007838 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1288122007839 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1288122007840 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 1288122007841 active site 1288122007842 dimer interface [polypeptide binding]; other site 1288122007843 MarR family; Region: MarR; pfam01047 1288122007844 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1288122007845 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1288122007846 nucleotide binding site [chemical binding]; other site 1288122007847 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1288122007848 UMP phosphatase; Provisional; Region: PRK10444 1288122007849 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122007850 active site 1288122007851 motif I; other site 1288122007852 motif II; other site 1288122007853 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122007854 asparagine synthetase B; Provisional; Region: asnB; PRK09431 1288122007855 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 1288122007856 active site 1288122007857 dimer interface [polypeptide binding]; other site 1288122007858 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 1288122007859 Ligand Binding Site [chemical binding]; other site 1288122007860 Molecular Tunnel; other site 1288122007861 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1288122007862 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1288122007863 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1288122007864 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1288122007865 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122007866 FeS/SAM binding site; other site 1288122007867 TRAM domain; Region: TRAM; pfam01938 1288122007868 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1288122007869 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1288122007870 PhoH-like protein; Region: PhoH; pfam02562 1288122007871 metal-binding heat shock protein; Provisional; Region: PRK00016 1288122007872 magnesium/cobalt efflux protein CorC; Provisional; Region: PRK15094 1288122007873 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1288122007874 Transporter associated domain; Region: CorC_HlyC; smart01091 1288122007875 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1288122007876 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1288122007877 putative active site [active] 1288122007878 catalytic triad [active] 1288122007879 putative dimer interface [polypeptide binding]; other site 1288122007880 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 1288122007881 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122007882 substrate binding pocket [chemical binding]; other site 1288122007883 membrane-bound complex binding site; other site 1288122007884 hinge residues; other site 1288122007885 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1288122007886 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122007887 dimer interface [polypeptide binding]; other site 1288122007888 conserved gate region; other site 1288122007889 putative PBP binding loops; other site 1288122007890 ABC-ATPase subunit interface; other site 1288122007891 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1288122007892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122007893 dimer interface [polypeptide binding]; other site 1288122007894 conserved gate region; other site 1288122007895 putative PBP binding loops; other site 1288122007896 ABC-ATPase subunit interface; other site 1288122007897 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1288122007898 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1288122007899 Walker A/P-loop; other site 1288122007900 ATP binding site [chemical binding]; other site 1288122007901 Q-loop/lid; other site 1288122007902 ABC transporter signature motif; other site 1288122007903 Walker B; other site 1288122007904 D-loop; other site 1288122007905 H-loop/switch region; other site 1288122007906 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1288122007907 active site 1288122007908 tetramer interface [polypeptide binding]; other site 1288122007909 hypothetical protein; Provisional; Region: PRK11032 1288122007910 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1288122007911 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1288122007912 HIGH motif; other site 1288122007913 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1288122007914 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1288122007915 active site 1288122007916 KMSKS motif; other site 1288122007917 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1288122007918 tRNA binding surface [nucleotide binding]; other site 1288122007919 Lipopolysaccharide-assembly; Region: LptE; cl01125 1288122007920 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1288122007921 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1288122007922 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1288122007923 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1288122007924 active site 1288122007925 (T/H)XGH motif; other site 1288122007926 ribosome-associated protein; Provisional; Region: PRK11538 1288122007927 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1288122007928 penicillin-binding protein 2; Provisional; Region: PRK10795 1288122007929 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1288122007930 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1288122007931 cell wall shape-determining protein; Provisional; Region: PRK10794 1288122007932 rare lipoprotein A; Provisional; Region: PRK10672 1288122007933 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1288122007934 Sporulation related domain; Region: SPOR; pfam05036 1288122007935 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 1288122007936 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1288122007937 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1288122007938 hypothetical protein; Provisional; Region: PRK04998 1288122007939 lipoate-protein ligase B; Provisional; Region: PRK14342 1288122007940 lipoyl synthase; Provisional; Region: PRK05481 1288122007941 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122007942 FeS/SAM binding site; other site 1288122007943 twin arginine translocase protein E; Validated; Region: tatE; PRK03625 1288122007944 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1288122007945 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1288122007946 active site 1288122007947 catalytic tetrad [active] 1288122007948 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 1288122007949 lytic murein endotransglycosylase E; Provisional; Region: emtA; PRK15470 1288122007950 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122007951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122007952 catalytic residue [active] 1288122007953 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 1288122007954 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1288122007955 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1288122007956 acyl-activating enzyme (AAE) consensus motif; other site 1288122007957 putative AMP binding site [chemical binding]; other site 1288122007958 putative active site [active] 1288122007959 putative CoA binding site [chemical binding]; other site 1288122007960 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 1288122007961 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 1288122007962 substrate binding site [chemical binding]; other site 1288122007963 oxyanion hole (OAH) forming residues; other site 1288122007964 trimer interface [polypeptide binding]; other site 1288122007965 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 1288122007966 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1288122007967 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 1288122007968 acyl-activating enzyme (AAE) consensus motif; other site 1288122007969 putative AMP binding site [chemical binding]; other site 1288122007970 putative active site [active] 1288122007971 putative CoA binding site [chemical binding]; other site 1288122007972 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 1288122007973 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1288122007974 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 1288122007975 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1288122007976 active site 1288122007977 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 1288122007978 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 1288122007979 Ligand binding site [chemical binding]; other site 1288122007980 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1288122007981 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 1288122007982 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1288122007983 putative oxidoreductase FixC; Provisional; Region: PRK10157 1288122007984 ferredoxin-like protein FixX; Provisional; Region: PRK15449 1288122007985 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122007986 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1288122007987 putative substrate translocation pore; other site 1288122007988 acetyl esterase; Provisional; Region: PRK10162 1288122007989 DNA-binding transcriptional activator CaiF; Provisional; Region: PRK11476 1288122007990 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 1288122007991 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1288122007992 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122007993 S-adenosylmethionine binding site [chemical binding]; other site 1288122007994 molybdenum transport protein ModD; Provisional; Region: PRK06096 1288122007995 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 1288122007996 dimerization interface [polypeptide binding]; other site 1288122007997 active site 1288122007998 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 1288122007999 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1288122008000 ParB-like nuclease domain; Region: ParB; smart00470 1288122008001 Predicted phosphoadenosine phosphosulfate sulfotransferase [General function prediction only]; Region: COG3969 1288122008002 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 1288122008003 Active Sites [active] 1288122008004 Domain of unknown function (DUF3440); Region: DUF3440; pfam11922 1288122008005 potassium uptake protein; Region: kup; TIGR00794 1288122008006 K+ potassium transporter; Region: K_trans; pfam02705 1288122008007 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1288122008008 homodimer interface [polypeptide binding]; other site 1288122008009 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1288122008010 active site pocket [active] 1288122008011 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 1288122008012 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122008013 ATP binding site [chemical binding]; other site 1288122008014 Mg2+ binding site [ion binding]; other site 1288122008015 G-X-G motif; other site 1288122008016 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 1288122008017 anti sigma factor interaction site; other site 1288122008018 regulatory phosphorylation site [posttranslational modification]; other site 1288122008019 Response regulator receiver domain; Region: Response_reg; pfam00072 1288122008020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122008021 active site 1288122008022 phosphorylation site [posttranslational modification] 1288122008023 intermolecular recognition site; other site 1288122008024 dimerization interface [polypeptide binding]; other site 1288122008025 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1288122008026 phospholipid:lipid A palmitoyltransferase; Provisional; Region: pagP; PRK11045 1288122008027 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase; Provisional; Region: PRK10507 1288122008028 CHAP domain; Region: CHAP; pfam05257 1288122008029 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 1288122008030 HdeA/HdeB family; Region: HdeA; cl05752 1288122008031 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1288122008032 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1288122008033 putative ion selectivity filter; other site 1288122008034 putative pore gating glutamate residue; other site 1288122008035 Terminase small subunit; Region: Terminase_2; cl01513 1288122008036 Ornithine cyclodeaminase/mu-crystallin family; Region: OCD_Mu_crystall; pfam02423 1288122008037 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1288122008038 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122008039 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122008040 catalytic residue [active] 1288122008041 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1288122008042 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1288122008043 ssDNA binding site [nucleotide binding]; other site 1288122008044 dimer interface [polypeptide binding]; other site 1288122008045 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122008046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 1288122008047 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 1288122008048 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 1288122008049 active site 1288122008050 metal binding site [ion binding]; metal-binding site 1288122008051 interdomain interaction site; other site 1288122008052 Superfamily II helicase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG5519 1288122008053 Domain of unknown function (DUF4222); Region: DUF4222; pfam13973 1288122008054 Prophage antirepressor [Transcription]; Region: COG3617 1288122008055 BRO family, N-terminal domain; Region: Bro-N; smart01040 1288122008056 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1288122008057 integrase; Provisional; Region: int; PHA02601 1288122008058 P22-like integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial and phage integrases, including those similar to phage P22-like integrases, DLP12 and APSE-1; Region: INT_P22_C; cd01192 1288122008059 Int/Topo IB signature motif; other site 1288122008060 integrase; Provisional; Region: PRK09692 1288122008061 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1288122008062 active site 1288122008063 Int/Topo IB signature motif; other site 1288122008064 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1288122008065 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1288122008066 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1288122008067 homodimer interface [polypeptide binding]; other site 1288122008068 NADP binding site [chemical binding]; other site 1288122008069 substrate binding site [chemical binding]; other site 1288122008070 ribosome-associated protein; Provisional; Region: PRK11507 1288122008071 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1288122008072 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1288122008073 active site 1288122008074 HIGH motif; other site 1288122008075 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1288122008076 KMSKS motif; other site 1288122008077 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1288122008078 tRNA binding surface [nucleotide binding]; other site 1288122008079 anticodon binding site; other site 1288122008080 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1288122008081 substrate binding site [chemical binding]; other site 1288122008082 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1288122008083 putative active site [active] 1288122008084 putative metal binding site [ion binding]; other site 1288122008085 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122008086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122008087 metal binding site [ion binding]; metal-binding site 1288122008088 active site 1288122008089 I-site; other site 1288122008090 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1288122008091 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1288122008092 ATP-grasp domain; Region: ATP-grasp; pfam02222 1288122008093 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1288122008094 putative ABC transporter ATP-binding protein YbbA; Provisional; Region: PRK10584 1288122008095 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1288122008096 Walker A/P-loop; other site 1288122008097 ATP binding site [chemical binding]; other site 1288122008098 Q-loop/lid; other site 1288122008099 ABC transporter signature motif; other site 1288122008100 Walker B; other site 1288122008101 D-loop; other site 1288122008102 H-loop/switch region; other site 1288122008103 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1288122008104 active site 1288122008105 catalytic triad [active] 1288122008106 oxyanion hole [active] 1288122008107 switch loop; other site 1288122008108 oxidoreductase; Provisional; Region: PRK08017 1288122008109 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1288122008110 NADP binding site [chemical binding]; other site 1288122008111 active site 1288122008112 steroid binding site; other site 1288122008113 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1288122008114 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 1288122008115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 1288122008116 hypothetical protein; Provisional; Region: PRK10519 1288122008117 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1288122008118 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 1288122008119 metal binding site [ion binding]; metal-binding site 1288122008120 dimer interface [polypeptide binding]; other site 1288122008121 Protein of unknown function (DUF465); Region: DUF465; cl01070 1288122008122 enolase; Provisional; Region: eno; PRK00077 1288122008123 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 1288122008124 dimer interface [polypeptide binding]; other site 1288122008125 metal binding site [ion binding]; metal-binding site 1288122008126 substrate binding pocket [chemical binding]; other site 1288122008127 CTP synthetase; Validated; Region: pyrG; PRK05380 1288122008128 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 1288122008129 Catalytic site [active] 1288122008130 active site 1288122008131 UTP binding site [chemical binding]; other site 1288122008132 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1288122008133 active site 1288122008134 putative oxyanion hole; other site 1288122008135 catalytic triad [active] 1288122008136 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1288122008137 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 1288122008138 homodimer interface [polypeptide binding]; other site 1288122008139 metal binding site [ion binding]; metal-binding site 1288122008140 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1288122008141 homodimer interface [polypeptide binding]; other site 1288122008142 active site 1288122008143 putative chemical substrate binding site [chemical binding]; other site 1288122008144 metal binding site [ion binding]; metal-binding site 1288122008145 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1288122008146 HD domain; Region: HD_4; pfam13328 1288122008147 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1288122008148 synthetase active site [active] 1288122008149 NTP binding site [chemical binding]; other site 1288122008150 metal binding site [ion binding]; metal-binding site 1288122008151 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 1288122008152 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1288122008153 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1288122008154 TRAM domain; Region: TRAM; pfam01938 1288122008155 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122008156 S-adenosylmethionine binding site [chemical binding]; other site 1288122008157 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 1288122008158 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 1288122008159 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122008160 dimerization interface [polypeptide binding]; other site 1288122008161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122008162 dimer interface [polypeptide binding]; other site 1288122008163 phosphorylation site [posttranslational modification] 1288122008164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122008165 ATP binding site [chemical binding]; other site 1288122008166 Mg2+ binding site [ion binding]; other site 1288122008167 G-X-G motif; other site 1288122008168 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 1288122008169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122008170 active site 1288122008171 phosphorylation site [posttranslational modification] 1288122008172 intermolecular recognition site; other site 1288122008173 dimerization interface [polypeptide binding]; other site 1288122008174 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 1288122008175 putative binding surface; other site 1288122008176 active site 1288122008177 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1288122008178 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 1288122008179 active site 1288122008180 hydrophilic channel; other site 1288122008181 dimerization interface [polypeptide binding]; other site 1288122008182 catalytic residues [active] 1288122008183 active site lid [active] 1288122008184 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1288122008185 Recombination protein O N terminal; Region: RecO_N; pfam11967 1288122008186 Recombination protein O C terminal; Region: RecO_C; pfam02565 1288122008187 GTPase Era; Reviewed; Region: era; PRK00089 1288122008188 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1288122008189 G1 box; other site 1288122008190 GTP/Mg2+ binding site [chemical binding]; other site 1288122008191 Switch I region; other site 1288122008192 G2 box; other site 1288122008193 Switch II region; other site 1288122008194 G3 box; other site 1288122008195 G4 box; other site 1288122008196 G5 box; other site 1288122008197 KH domain; Region: KH_2; pfam07650 1288122008198 ribonuclease III; Reviewed; Region: rnc; PRK00102 1288122008199 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1288122008200 dimerization interface [polypeptide binding]; other site 1288122008201 active site 1288122008202 metal binding site [ion binding]; metal-binding site 1288122008203 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1288122008204 dsRNA binding site [nucleotide binding]; other site 1288122008205 signal peptidase I; Provisional; Region: PRK10861 1288122008206 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1288122008207 Catalytic site [active] 1288122008208 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1288122008209 Catalytic site [active] 1288122008210 GTP-binding protein LepA; Provisional; Region: PRK05433 1288122008211 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1288122008212 G1 box; other site 1288122008213 putative GEF interaction site [polypeptide binding]; other site 1288122008214 GTP/Mg2+ binding site [chemical binding]; other site 1288122008215 Switch I region; other site 1288122008216 G2 box; other site 1288122008217 G3 box; other site 1288122008218 Switch II region; other site 1288122008219 G4 box; other site 1288122008220 G5 box; other site 1288122008221 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 1288122008222 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 1288122008223 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1288122008224 SoxR reducing system protein RseC; Provisional; Region: PRK10862 1288122008225 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1288122008226 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1288122008227 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 1288122008228 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1288122008229 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 1288122008230 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 1288122008231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1288122008232 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1288122008233 DNA binding residues [nucleotide binding] 1288122008234 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 1288122008235 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1288122008236 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122008237 S-adenosylmethionine binding site [chemical binding]; other site 1288122008238 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1288122008239 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1288122008240 ATP binding site [chemical binding]; other site 1288122008241 Mg++ binding site [ion binding]; other site 1288122008242 motif III; other site 1288122008243 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 1288122008244 nucleotide binding region [chemical binding]; other site 1288122008245 ATP-binding site [chemical binding]; other site 1288122008246 autonomous glycyl radical cofactor GrcA; Provisional; Region: PRK11127 1288122008247 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1288122008248 ligand binding site [chemical binding]; other site 1288122008249 active site 1288122008250 UGI interface [polypeptide binding]; other site 1288122008251 catalytic site [active] 1288122008252 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 1288122008253 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 1288122008254 dimer interface [polypeptide binding]; other site 1288122008255 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1288122008256 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 1288122008257 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1288122008258 recombination and repair protein; Provisional; Region: PRK10869 1288122008259 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1288122008260 Walker A/P-loop; other site 1288122008261 ATP binding site [chemical binding]; other site 1288122008262 Q-loop/lid; other site 1288122008263 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1288122008264 ABC transporter signature motif; other site 1288122008265 Walker B; other site 1288122008266 D-loop; other site 1288122008267 H-loop/switch region; other site 1288122008268 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 1288122008269 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1288122008270 hypothetical protein; Validated; Region: PRK01777 1288122008271 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1288122008272 putative coenzyme Q binding site [chemical binding]; other site 1288122008273 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 1288122008274 SmpB-tmRNA interface; other site 1288122008275 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 1288122008276 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1288122008277 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 1288122008278 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1288122008279 homotrimer interaction site [polypeptide binding]; other site 1288122008280 putative active site [active] 1288122008281 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 1288122008282 AzlC protein; Region: AzlC; pfam03591 1288122008283 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 1288122008284 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1288122008285 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1288122008286 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1288122008287 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cd00374 1288122008288 CAS motifs; other site 1288122008289 active site 1288122008290 GAF domain; Region: GAF; cl17456 1288122008291 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1288122008292 PAS domain; Region: PAS_9; pfam13426 1288122008293 putative active site [active] 1288122008294 heme pocket [chemical binding]; other site 1288122008295 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1288122008296 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122008297 metal binding site [ion binding]; metal-binding site 1288122008298 active site 1288122008299 I-site; other site 1288122008300 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 1288122008301 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 1288122008302 gating phenylalanine in ion channel; other site 1288122008303 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1288122008304 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008305 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1288122008306 putative dimerization interface [polypeptide binding]; other site 1288122008307 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1288122008308 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1288122008309 dimerization interface [polypeptide binding]; other site 1288122008310 DPS ferroxidase diiron center [ion binding]; other site 1288122008311 ion pore; other site 1288122008312 Protein of unknown function (DUF1198); Region: DUF1198; pfam06711 1288122008313 transcriptional repressor MprA; Provisional; Region: PRK10870 1288122008314 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1288122008315 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 1288122008316 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122008317 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122008318 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1288122008319 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008320 putative substrate translocation pore; other site 1288122008321 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008322 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1288122008323 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1288122008324 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1288122008325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122008326 ABC-ATPase subunit interface; other site 1288122008327 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122008328 ABC-ATPase subunit interface; other site 1288122008329 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1288122008330 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122008331 Walker A/P-loop; other site 1288122008332 ATP binding site [chemical binding]; other site 1288122008333 Q-loop/lid; other site 1288122008334 ABC transporter signature motif; other site 1288122008335 Walker B; other site 1288122008336 D-loop; other site 1288122008337 H-loop/switch region; other site 1288122008338 serine endoprotease; Provisional; Region: PRK10942 1288122008339 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1288122008340 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1288122008341 protein binding site [polypeptide binding]; other site 1288122008342 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1288122008343 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 1288122008344 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 1288122008345 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1288122008346 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 1288122008347 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 1288122008348 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 1288122008349 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 1288122008350 cobalamin binding residues [chemical binding]; other site 1288122008351 putative BtuC binding residues; other site 1288122008352 dimer interface [polypeptide binding]; other site 1288122008353 hypothetical protein; Provisional; Region: PRK10578 1288122008354 UPF0126 domain; Region: UPF0126; pfam03458 1288122008355 UPF0126 domain; Region: UPF0126; pfam03458 1288122008356 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1288122008357 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1288122008358 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1288122008359 Cl- selectivity filter; other site 1288122008360 Cl- binding residues [ion binding]; other site 1288122008361 pore gating glutamate residue; other site 1288122008362 dimer interface [polypeptide binding]; other site 1288122008363 H+/Cl- coupling transport residue; other site 1288122008364 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1288122008365 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1288122008366 inhibitor-cofactor binding pocket; inhibition site 1288122008367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122008368 catalytic residue [active] 1288122008369 purine nucleoside phosphorylase; Provisional; Region: PRK08202 1288122008370 putative transporter; Provisional; Region: PRK03699 1288122008371 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008372 putative substrate translocation pore; other site 1288122008373 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 1288122008374 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008375 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122008376 dimerization interface [polypeptide binding]; other site 1288122008377 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1288122008378 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1288122008379 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1288122008380 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008381 putative substrate translocation pore; other site 1288122008382 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122008383 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122008384 GMP synthase; Reviewed; Region: guaA; PRK00074 1288122008385 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1288122008386 AMP/PPi binding site [chemical binding]; other site 1288122008387 candidate oxyanion hole; other site 1288122008388 catalytic triad [active] 1288122008389 potential glutamine specificity residues [chemical binding]; other site 1288122008390 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1288122008391 ATP Binding subdomain [chemical binding]; other site 1288122008392 Ligand Binding sites [chemical binding]; other site 1288122008393 Dimerization subdomain; other site 1288122008394 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1288122008395 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1288122008396 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 1288122008397 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 1288122008398 active site 1288122008399 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1288122008400 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1288122008401 generic binding surface II; other site 1288122008402 generic binding surface I; other site 1288122008403 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 1288122008404 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1288122008405 TPR motif; other site 1288122008406 binding surface 1288122008407 Cytochrome C biogenesis protein; Region: CcmH; cl01179 1288122008408 heme lyase subunit NrfE; Provisional; Region: PRK10369 1288122008409 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 1288122008410 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 1288122008411 cytochrome c nitrite reductase pentaheme subunit; Provisional; Region: PRK11659 1288122008412 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 1288122008413 Protein of unknown function (DUF1407); Region: DUF1407; pfam07191 1288122008414 Trm112p-like protein; Region: Trm112p; cl01066 1288122008415 Predicted permeases [General function prediction only]; Region: COG0679 1288122008416 GTP-binding protein Der; Reviewed; Region: PRK00093 1288122008417 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1288122008418 G1 box; other site 1288122008419 GTP/Mg2+ binding site [chemical binding]; other site 1288122008420 Switch I region; other site 1288122008421 G2 box; other site 1288122008422 Switch II region; other site 1288122008423 G3 box; other site 1288122008424 G4 box; other site 1288122008425 G5 box; other site 1288122008426 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1288122008427 G1 box; other site 1288122008428 GTP/Mg2+ binding site [chemical binding]; other site 1288122008429 Switch I region; other site 1288122008430 G2 box; other site 1288122008431 G3 box; other site 1288122008432 Switch II region; other site 1288122008433 G4 box; other site 1288122008434 G5 box; other site 1288122008435 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1288122008436 Beta-barrel assembly machinery (Bam) complex component B and related proteins; Region: BamB_YfgL; cd10276 1288122008437 Trp docking motif [polypeptide binding]; other site 1288122008438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1288122008439 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1288122008440 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 1288122008441 dimer interface [polypeptide binding]; other site 1288122008442 motif 1; other site 1288122008443 active site 1288122008444 motif 2; other site 1288122008445 motif 3; other site 1288122008446 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1288122008447 anticodon binding site; other site 1288122008448 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1288122008449 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1288122008450 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1288122008451 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1288122008452 Helix-turn-helix domain; Region: HTH_25; pfam13413 1288122008453 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1288122008454 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 1288122008455 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122008456 binding surface 1288122008457 TPR motif; other site 1288122008458 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1288122008459 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122008460 FeS/SAM binding site; other site 1288122008461 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 1288122008462 active site 1288122008463 multimer interface [polypeptide binding]; other site 1288122008464 SseB protein; Region: SseB; cl06279 1288122008465 aminopeptidase B; Provisional; Region: PRK05015 1288122008466 Peptidase; Region: DUF3663; pfam12404 1288122008467 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1288122008468 interface (dimer of trimers) [polypeptide binding]; other site 1288122008469 Substrate-binding/catalytic site; other site 1288122008470 Zn-binding sites [ion binding]; other site 1288122008471 Iron-sulphur cluster assembly; Region: Fe-S_assembly; cl01123 1288122008472 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1288122008473 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 1288122008474 catalytic loop [active] 1288122008475 iron binding site [ion binding]; other site 1288122008476 chaperone protein HscA; Provisional; Region: hscA; PRK05183 1288122008477 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 1288122008478 nucleotide binding site [chemical binding]; other site 1288122008479 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1288122008480 SBD interface [polypeptide binding]; other site 1288122008481 co-chaperone HscB; Provisional; Region: hscB; PRK05014 1288122008482 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 1288122008483 HSP70 interaction site [polypeptide binding]; other site 1288122008484 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 1288122008485 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1288122008486 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1288122008487 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1288122008488 trimerization site [polypeptide binding]; other site 1288122008489 active site 1288122008490 cysteine desulfurase; Provisional; Region: PRK14012 1288122008491 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1288122008492 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122008493 catalytic residue [active] 1288122008494 DNA-binding transcriptional regulator IscR; Provisional; Region: PRK10857 1288122008495 Rrf2 family protein; Region: rrf2_super; TIGR00738 1288122008496 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1288122008497 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1288122008498 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1288122008499 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 1288122008500 active site 1288122008501 dimerization interface [polypeptide binding]; other site 1288122008502 stationary phase inducible protein CsiE; Provisional; Region: PRK11564 1288122008503 PRD domain; Region: PRD; pfam00874 1288122008504 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1288122008505 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 1288122008506 dimer interface [polypeptide binding]; other site 1288122008507 active site 1288122008508 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1288122008509 folate binding site [chemical binding]; other site 1288122008510 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 1288122008511 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 1288122008512 heme-binding site [chemical binding]; other site 1288122008513 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 1288122008514 FAD binding pocket [chemical binding]; other site 1288122008515 FAD binding motif [chemical binding]; other site 1288122008516 phosphate binding motif [ion binding]; other site 1288122008517 beta-alpha-beta structure motif; other site 1288122008518 NAD binding pocket [chemical binding]; other site 1288122008519 Heme binding pocket [chemical binding]; other site 1288122008520 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1288122008521 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1288122008522 active site 1288122008523 catalytic site [active] 1288122008524 substrate binding site [chemical binding]; other site 1288122008525 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1288122008526 RNA/DNA hybrid binding site [nucleotide binding]; other site 1288122008527 active site 1288122008528 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122008529 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1288122008530 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1288122008531 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 1288122008532 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1288122008533 catalytic residue [active] 1288122008534 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1288122008535 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122008536 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122008537 hypothetical protein; Provisional; Region: PRK05421 1288122008538 putative catalytic site [active] 1288122008539 putative metal binding site [ion binding]; other site 1288122008540 putative phosphate binding site [ion binding]; other site 1288122008541 putative catalytic site [active] 1288122008542 putative phosphate binding site [ion binding]; other site 1288122008543 putative metal binding site [ion binding]; other site 1288122008544 protein disaggregation chaperone; Provisional; Region: PRK10865 1288122008545 Clp amino terminal domain; Region: Clp_N; pfam02861 1288122008546 Clp amino terminal domain; Region: Clp_N; pfam02861 1288122008547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122008548 Walker A motif; other site 1288122008549 ATP binding site [chemical binding]; other site 1288122008550 Walker B motif; other site 1288122008551 arginine finger; other site 1288122008552 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122008553 Walker A motif; other site 1288122008554 ATP binding site [chemical binding]; other site 1288122008555 Walker B motif; other site 1288122008556 arginine finger; other site 1288122008557 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1288122008558 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1288122008559 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1288122008560 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1288122008561 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122008562 RNA binding surface [nucleotide binding]; other site 1288122008563 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1288122008564 active site 1288122008565 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 1288122008566 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 1288122008567 30S subunit binding site; other site 1288122008568 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 1288122008569 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 1288122008570 Prephenate dehydratase; Region: PDT; pfam00800 1288122008571 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 1288122008572 putative L-Phe binding site [chemical binding]; other site 1288122008573 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1288122008574 Chorismate mutase type II; Region: CM_2; cl00693 1288122008575 prephenate dehydrogenase; Validated; Region: PRK08507 1288122008576 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 1288122008577 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1288122008578 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 1288122008579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122008580 active site 1288122008581 phosphorylation site [posttranslational modification] 1288122008582 intermolecular recognition site; other site 1288122008583 dimerization interface [polypeptide binding]; other site 1288122008584 LytTr DNA-binding domain; Region: LytTR; pfam04397 1288122008585 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1288122008586 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1288122008587 Protein of unknown function (DUF3442); Region: DUF3442; pfam11924 1288122008588 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 1288122008589 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 1288122008590 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 1288122008591 Protein of unknown function, DUF481; Region: DUF481; cl01213 1288122008592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122008593 S-adenosylmethionine binding site [chemical binding]; other site 1288122008594 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1288122008595 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1288122008596 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1288122008597 RimM N-terminal domain; Region: RimM; pfam01782 1288122008598 PRC-barrel domain; Region: PRC; pfam05239 1288122008599 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1288122008600 signal recognition particle protein; Provisional; Region: PRK10867 1288122008601 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1288122008602 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1288122008603 P loop; other site 1288122008604 GTP binding site [chemical binding]; other site 1288122008605 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1288122008606 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 1288122008607 Domain of unknown function DUF21; Region: DUF21; pfam01595 1288122008608 hypothetical protein; Provisional; Region: PRK11573 1288122008609 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1288122008610 Transporter associated domain; Region: CorC_HlyC; smart01091 1288122008611 S-ribosylhomocysteinase; Provisional; Region: PRK02260 1288122008612 glutamate--cysteine ligase; Provisional; Region: PRK02107 1288122008613 Predicted membrane protein [Function unknown]; Region: COG1238 1288122008614 fructose-1-P/6-phosphogluconate phosphatase; Provisional; Region: PRK10725 1288122008615 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122008616 motif II; other site 1288122008617 carbon storage regulator; Provisional; Region: PRK01712 1288122008618 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1288122008619 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 1288122008620 motif 1; other site 1288122008621 active site 1288122008622 motif 2; other site 1288122008623 motif 3; other site 1288122008624 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1288122008625 DHHA1 domain; Region: DHHA1; pfam02272 1288122008626 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1288122008627 recombinase A; Provisional; Region: recA; PRK09354 1288122008628 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 1288122008629 hexamer interface [polypeptide binding]; other site 1288122008630 Walker A motif; other site 1288122008631 ATP binding site [chemical binding]; other site 1288122008632 Walker B motif; other site 1288122008633 Competence-damaged protein; Region: CinA; cl00666 1288122008634 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1288122008635 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1288122008636 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 1288122008637 Autotransporter beta-domain; Region: Autotransporter; smart00869 1288122008638 MarC family integral membrane protein; Region: MarC; cl00919 1288122008639 amino acid transporter; Region: 2A0306; TIGR00909 1288122008640 glutaminase; Reviewed; Region: PRK12356 1288122008641 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1288122008642 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1288122008643 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 1288122008644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122008645 catalytic residue [active] 1288122008646 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1288122008647 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122008648 dimer interface [polypeptide binding]; other site 1288122008649 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1288122008650 putative CheW interface [polypeptide binding]; other site 1288122008651 acid-resistance protein; Provisional; Region: hdeB; PRK11566 1288122008652 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 1288122008653 DNA binding residues [nucleotide binding] 1288122008654 dimerization interface [polypeptide binding]; other site 1288122008655 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1288122008656 MutS domain I; Region: MutS_I; pfam01624 1288122008657 MutS domain II; Region: MutS_II; pfam05188 1288122008658 MutS domain III; Region: MutS_III; pfam05192 1288122008659 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1288122008660 Walker A/P-loop; other site 1288122008661 ATP binding site [chemical binding]; other site 1288122008662 Q-loop/lid; other site 1288122008663 ABC transporter signature motif; other site 1288122008664 Walker B; other site 1288122008665 D-loop; other site 1288122008666 H-loop/switch region; other site 1288122008667 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 1288122008668 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1288122008669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1288122008670 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1288122008671 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1288122008672 DNA binding residues [nucleotide binding] 1288122008673 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1288122008674 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1288122008675 Peptidase family M23; Region: Peptidase_M23; pfam01551 1288122008676 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1288122008677 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122008678 S-adenosylmethionine binding site [chemical binding]; other site 1288122008679 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1288122008680 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 1288122008681 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1288122008682 Permutation of conserved domain; other site 1288122008683 active site 1288122008684 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1288122008685 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 1288122008686 homotrimer interaction site [polypeptide binding]; other site 1288122008687 zinc binding site [ion binding]; other site 1288122008688 CDP-binding sites; other site 1288122008689 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1288122008690 substrate binding site; other site 1288122008691 dimer interface; other site 1288122008692 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1288122008693 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1288122008694 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1288122008695 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1288122008696 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1288122008697 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1288122008698 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1288122008699 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1288122008700 putative active site [active] 1288122008701 Ap4A binding site [chemical binding]; other site 1288122008702 nudix motif; other site 1288122008703 putative metal binding site [ion binding]; other site 1288122008704 MutH is a 28kD endonuclease involved in methyl-directed DNA mismatch repair in gram negative bacteria. MutH is both sequence-specific and methylation-specific, introducing a nick in the unmethylated strand of a hemi-methylated d(GATC) DNA duplex. MutH...; Region: MutH_Sau3AI; cd00583 1288122008705 putative DNA-binding cleft [nucleotide binding]; other site 1288122008706 putative DNA clevage site; other site 1288122008707 molecular lever; other site 1288122008708 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1288122008709 alkaline phosphatase; Provisional; Region: PRK10518 1288122008710 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 1288122008711 dimer interface [polypeptide binding]; other site 1288122008712 active site 1288122008713 lysophospholipid transporter LplT; Provisional; Region: PRK11195 1288122008714 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008715 putative substrate translocation pore; other site 1288122008716 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase; Validated; Region: PRK08043 1288122008717 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1288122008718 putative acyl-acceptor binding pocket; other site 1288122008719 C-terminal domain of the acyl-acyl carrier protein synthetase (also called 2-acylglycerophosphoethanolamine acyltransferase, Aas); Region: AAS_C; cd05909 1288122008720 acyl-activating enzyme (AAE) consensus motif; other site 1288122008721 putative AMP binding site [chemical binding]; other site 1288122008722 DNA-binding transcriptional regulator GalR; Provisional; Region: PRK10727 1288122008723 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122008724 DNA binding site [nucleotide binding] 1288122008725 domain linker motif; other site 1288122008726 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1288122008727 dimerization interface (closed form) [polypeptide binding]; other site 1288122008728 ligand binding site [chemical binding]; other site 1288122008729 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1288122008730 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122008731 DNA binding site [nucleotide binding] 1288122008732 domain linker motif; other site 1288122008733 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 1288122008734 dimerization interface (closed form) [polypeptide binding]; other site 1288122008735 ligand binding site [chemical binding]; other site 1288122008736 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 1288122008737 4Fe-4S binding domain; Region: Fer4; cl02805 1288122008738 hydrogenase 4 subunit B; Validated; Region: PRK06521 1288122008739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1288122008740 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1288122008741 NADH dehydrogenase; Region: NADHdh; cl00469 1288122008742 Ni,Fe-hydrogenase III component G [Energy production and conversion]; Region: HycE; COG3262 1288122008743 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 1288122008744 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 1288122008745 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 1288122008746 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122008747 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 1288122008748 formate hydrogenlyase maturation protein HycH; Provisional; Region: PRK15084 1288122008749 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 1288122008750 nickel binding site [ion binding]; other site 1288122008751 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122008752 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122008753 molybdopterin cofactor binding site; other site 1288122008754 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 1288122008755 molybdopterin cofactor binding site; other site 1288122008756 formate dehydrogenase-H ferredoxin subunit; Provisional; Region: PRK10330 1288122008757 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 1288122008758 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 1288122008759 Acylphosphatase; Region: Acylphosphatase; pfam00708 1288122008760 HypF finger; Region: zf-HYPF; pfam07503 1288122008761 HypF finger; Region: zf-HYPF; pfam07503 1288122008762 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 1288122008763 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 1288122008764 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 1288122008765 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 1288122008766 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1288122008767 hydrogenase 2 accessory protein HypG; Provisional; Region: PRK10413 1288122008768 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 1288122008769 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 1288122008770 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 1288122008771 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 1288122008772 dimerization interface [polypeptide binding]; other site 1288122008773 ATP binding site [chemical binding]; other site 1288122008774 formate hydrogenlyase regulatory protein HycA; Provisional; Region: PRK10198 1288122008775 formate hydrogenlyase transcriptional activator FhlA; Provisional; Region: PRK15429 1288122008776 GAF domain; Region: GAF; pfam01590 1288122008777 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122008778 Walker A motif; other site 1288122008779 ATP binding site [chemical binding]; other site 1288122008780 Walker B motif; other site 1288122008781 arginine finger; other site 1288122008782 diaminopimelate decarboxylase; Provisional; Region: PRK11165 1288122008783 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1288122008784 active site 1288122008785 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122008786 substrate binding site [chemical binding]; other site 1288122008787 catalytic residues [active] 1288122008788 dimer interface [polypeptide binding]; other site 1288122008789 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 1288122008790 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008791 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122008792 dimerization interface [polypeptide binding]; other site 1288122008793 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1288122008794 Sulfatase; Region: Sulfatase; cl17466 1288122008795 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1288122008796 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1288122008797 Lyase, N terminal; Region: Lyase_N; pfam09092 1288122008798 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 1288122008799 substrate binding site [chemical binding]; other site 1288122008800 catalytic residues [active] 1288122008801 Lyase, N terminal; Region: Lyase_N; pfam09092 1288122008802 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cl17706 1288122008803 substrate binding site [chemical binding]; other site 1288122008804 catalytic residues [active] 1288122008805 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1288122008806 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1288122008807 putative acyl-acceptor binding pocket; other site 1288122008808 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 1288122008809 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1288122008810 trimer interface [polypeptide binding]; other site 1288122008811 Haemagglutinin; Region: HIM; pfam05662 1288122008812 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1288122008813 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 1288122008814 dimer interface [polypeptide binding]; other site 1288122008815 putative anticodon binding site; other site 1288122008816 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 1288122008817 motif 1; other site 1288122008818 active site 1288122008819 motif 2; other site 1288122008820 motif 3; other site 1288122008821 peptide chain release factor 2; Provisional; Region: PRK08787 1288122008822 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1288122008823 RF-1 domain; Region: RF-1; pfam00472 1288122008824 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1288122008825 DHH family; Region: DHH; pfam01368 1288122008826 DHHA1 domain; Region: DHHA1; pfam02272 1288122008827 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 1288122008828 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 1288122008829 dimerization domain [polypeptide binding]; other site 1288122008830 dimer interface [polypeptide binding]; other site 1288122008831 catalytic residues [active] 1288122008832 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1288122008833 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1288122008834 active site 1288122008835 Int/Topo IB signature motif; other site 1288122008836 flavodoxin FldB; Provisional; Region: PRK12359 1288122008837 Protein of unknown function (DUF1434); Region: DUF1434; pfam07254 1288122008838 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 1288122008839 putative global regulator; Reviewed; Region: PRK09559 1288122008840 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1288122008841 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 1288122008842 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1288122008843 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1288122008844 shikimate binding site; other site 1288122008845 NAD(P) binding site [chemical binding]; other site 1288122008846 nucleoside-specific channel-forming protein Tsx; Provisional; Region: PRK15106 1288122008847 hemolysin; Provisional; Region: PRK15087 1288122008848 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1288122008849 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1288122008850 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1288122008851 glycine dehydrogenase; Provisional; Region: PRK05367 1288122008852 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1288122008853 tetramer interface [polypeptide binding]; other site 1288122008854 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122008855 catalytic residue [active] 1288122008856 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 1288122008857 tetramer interface [polypeptide binding]; other site 1288122008858 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122008859 catalytic residue [active] 1288122008860 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 1288122008861 lipoyl attachment site [posttranslational modification]; other site 1288122008862 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1288122008863 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1288122008864 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1288122008865 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1288122008866 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 1288122008867 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1288122008868 proline aminopeptidase P II; Provisional; Region: PRK10879 1288122008869 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1288122008870 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 1288122008871 active site 1288122008872 hypothetical protein; Reviewed; Region: PRK01736 1288122008873 Z-ring-associated protein; Provisional; Region: PRK10972 1288122008874 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 1288122008875 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1288122008876 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1288122008877 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1288122008878 ligand binding site [chemical binding]; other site 1288122008879 NAD binding site [chemical binding]; other site 1288122008880 tetramer interface [polypeptide binding]; other site 1288122008881 catalytic site [active] 1288122008882 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1288122008883 L-serine binding site [chemical binding]; other site 1288122008884 ACT domain interface; other site 1288122008885 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1288122008886 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122008887 active site 1288122008888 dimer interface [polypeptide binding]; other site 1288122008889 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 1288122008890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008891 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 1288122008892 putative dimerization interface [polypeptide binding]; other site 1288122008893 oxidative stress defense protein; Provisional; Region: PRK11087 1288122008894 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1288122008895 LysE type translocator; Region: LysE; cl00565 1288122008896 mechanosensitive channel MscS; Provisional; Region: PRK10334 1288122008897 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1288122008898 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1288122008899 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 1288122008900 active site 1288122008901 intersubunit interface [polypeptide binding]; other site 1288122008902 zinc binding site [ion binding]; other site 1288122008903 Na+ binding site [ion binding]; other site 1288122008904 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1288122008905 Phosphoglycerate kinase; Region: PGK; pfam00162 1288122008906 substrate binding site [chemical binding]; other site 1288122008907 hinge regions; other site 1288122008908 ADP binding site [chemical binding]; other site 1288122008909 catalytic site [active] 1288122008910 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1288122008911 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1288122008912 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1288122008913 transketolase; Reviewed; Region: PRK12753 1288122008914 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 1288122008915 TPP-binding site [chemical binding]; other site 1288122008916 dimer interface [polypeptide binding]; other site 1288122008917 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 1288122008918 PYR/PP interface [polypeptide binding]; other site 1288122008919 dimer interface [polypeptide binding]; other site 1288122008920 TPP binding site [chemical binding]; other site 1288122008921 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1288122008922 Adenylate cyclase associated (CAP) N terminal; Region: CAP_N; pfam01213 1288122008923 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1288122008924 Sulfatase; Region: Sulfatase; cl17466 1288122008925 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1288122008926 agmatinase; Region: agmatinase; TIGR01230 1288122008927 oligomer interface [polypeptide binding]; other site 1288122008928 putative active site [active] 1288122008929 Mn binding site [ion binding]; other site 1288122008930 arginine decarboxylase; Provisional; Region: PRK05354 1288122008931 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1288122008932 dimer interface [polypeptide binding]; other site 1288122008933 active site 1288122008934 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122008935 catalytic residues [active] 1288122008936 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1288122008937 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1288122008938 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1288122008939 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1288122008940 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1288122008941 MFS transporter, sugar porter (SP) family; Region: SP; TIGR00879 1288122008942 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008943 putative substrate translocation pore; other site 1288122008944 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122008945 peptidase PmbA; Provisional; Region: PRK11040 1288122008946 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1288122008947 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1288122008948 hypothetical protein; Provisional; Region: PRK05255 1288122008949 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 1288122008950 RNAase interaction site [polypeptide binding]; other site 1288122008951 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 1288122008952 active site 1288122008953 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 1288122008954 beta-galactosidase; Region: BGL; TIGR03356 1288122008955 DctM-like transporters; Region: DctM; pfam06808 1288122008956 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 1288122008957 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 1288122008958 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1288122008959 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 1288122008960 cell density-dependent motility repressor; Provisional; Region: PRK10082 1288122008961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008962 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1288122008963 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1288122008964 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1288122008965 active site 1288122008966 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; COG3069 1288122008967 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1288122008968 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1288122008969 ligand binding site [chemical binding]; other site 1288122008970 flexible hinge region; other site 1288122008971 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 1288122008972 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1288122008973 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1288122008974 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 1288122008975 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1288122008976 nucleoside transporter; Region: 2A0110; TIGR00889 1288122008977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1288122008978 short chain dehydrogenase; Provisional; Region: PRK07041 1288122008979 NAD(P) binding site [chemical binding]; other site 1288122008980 active site 1288122008981 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122008982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008983 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1288122008984 putative effector binding pocket; other site 1288122008985 dimerization interface [polypeptide binding]; other site 1288122008986 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122008987 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1288122008988 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122008989 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122008990 S-adenosylmethionine binding site [chemical binding]; other site 1288122008991 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122008992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122008993 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122008994 dimerization interface [polypeptide binding]; other site 1288122008995 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1288122008996 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 1288122008997 cytochrome bd-II oxidase subunit 2; Provisional; Region: PRK15028 1288122008998 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1288122008999 cytochrome bd-II oxidase subunit 1; Provisional; Region: PRK15035 1288122009000 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1288122009001 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 1288122009002 Rubredoxin; Region: Rubredoxin; pfam00301 1288122009003 iron binding site [ion binding]; other site 1288122009004 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 1288122009005 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 1288122009006 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 1288122009007 putative substrate-binding site; other site 1288122009008 nickel binding site [ion binding]; other site 1288122009009 hydrogenase 1 b-type cytochrome subunit; Provisional; Region: PRK10171 1288122009010 hydrogenase 1 large subunit; Provisional; Region: PRK10170 1288122009011 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 1288122009012 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 1288122009013 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 1288122009014 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 1288122009015 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 1288122009016 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1288122009017 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1288122009018 putrescine transporter; Provisional; Region: potE; PRK10655 1288122009019 lysine decarboxylase CadA; Provisional; Region: PRK15400 1288122009020 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 1288122009021 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 1288122009022 homodimer interface [polypeptide binding]; other site 1288122009023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122009024 catalytic residue [active] 1288122009025 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 1288122009026 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1288122009027 hypothetical protein; Provisional; Region: PRK09273 1288122009028 Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]; Region: RpiB; COG0698 1288122009029 Ribose-5-phosphate isomerase; Region: DUF3666; pfam12408 1288122009030 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 1288122009031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122009032 putative substrate translocation pore; other site 1288122009033 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1288122009034 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122009035 active site 1288122009036 phosphorylation site [posttranslational modification] 1288122009037 intermolecular recognition site; other site 1288122009038 dimerization interface [polypeptide binding]; other site 1288122009039 LytTr DNA-binding domain; Region: LytTR; smart00850 1288122009040 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1288122009041 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1288122009042 Histidine kinase; Region: His_kinase; pfam06580 1288122009043 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122009044 ATP binding site [chemical binding]; other site 1288122009045 Mg2+ binding site [ion binding]; other site 1288122009046 G-X-G motif; other site 1288122009047 alpha-galactosidase; Provisional; Region: PRK15076 1288122009048 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 1288122009049 NAD binding site [chemical binding]; other site 1288122009050 sugar binding site [chemical binding]; other site 1288122009051 divalent metal binding site [ion binding]; other site 1288122009052 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122009053 dimer interface [polypeptide binding]; other site 1288122009054 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1288122009055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1288122009056 TM-ABC transporter signature motif; other site 1288122009057 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1288122009058 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122009059 Walker A/P-loop; other site 1288122009060 ATP binding site [chemical binding]; other site 1288122009061 Q-loop/lid; other site 1288122009062 ABC transporter signature motif; other site 1288122009063 Walker B; other site 1288122009064 D-loop; other site 1288122009065 H-loop/switch region; other site 1288122009066 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1288122009067 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1288122009068 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1288122009069 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 1288122009070 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 1288122009071 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1288122009072 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122009073 D-galactonate transporter; Region: 2A0114; TIGR00893 1288122009074 putative substrate translocation pore; other site 1288122009075 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1288122009076 putative outer membrane porin protein; Provisional; Region: PRK11379 1288122009077 glucuronide transporter; Provisional; Region: PRK09848 1288122009078 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1288122009079 beta-D-glucuronidase; Provisional; Region: PRK10150 1288122009080 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 1288122009081 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1288122009082 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 1288122009083 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1288122009084 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 1288122009085 TrkA-N domain; Region: TrkA_N; pfam02254 1288122009086 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1288122009087 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122009088 DNA binding site [nucleotide binding] 1288122009089 domain linker motif; other site 1288122009090 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1288122009091 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1288122009092 active site 1288122009093 phosphorylation site [posttranslational modification] 1288122009094 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1288122009095 active site 1288122009096 P-loop; other site 1288122009097 phosphorylation site [posttranslational modification] 1288122009098 PTS system ascorbate-specific transporter subunit IIC; Reviewed; Region: ulaA; PRK09410 1288122009099 Right handed beta helix region; Region: Beta_helix; pfam13229 1288122009100 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 1288122009101 Pertactin-like passenger domains (virulence factors) of autotransporter proteins of the type V secretion system. Autotransporters are proteins used by Gram-negative bacteria to transport proteins across their outer membranes. The C-terminal (beta) domain...; Region: PL_Passenger_AT; cl00185 1288122009102 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1288122009103 Fimbrial, major and minor subunit; Region: Fimbrial_K88; pfam02432 1288122009104 Fimbrial, major and minor subunit; Region: Fimbrial_K88; pfam02432 1288122009105 Fimbrial, major and minor subunit; Region: Fimbrial_K88; pfam02432 1288122009106 fimbrial chaperone protein PefD; Provisional; Region: PRK15211 1288122009107 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 1288122009108 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 1288122009109 fimbrial outer membrane usher protein PefC; Provisional; Region: PRK15213 1288122009110 PapC N-terminal domain; Region: PapC_N; pfam13954 1288122009111 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 1288122009112 PapC C-terminal domain; Region: PapC_C; pfam13953 1288122009113 Fimbrial protein; Region: Fimbrial; cl01416 1288122009114 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 1288122009115 PTS system, Lactose/Cellobiose specific IIA subunit; Region: PTS_IIA; pfam02255 1288122009116 active site 1288122009117 methionine cluster; other site 1288122009118 phosphorylation site [posttranslational modification] 1288122009119 metal binding site [ion binding]; metal-binding site 1288122009120 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1288122009121 active site 1288122009122 P-loop; other site 1288122009123 phosphorylation site [posttranslational modification] 1288122009124 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 1288122009125 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1288122009126 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1288122009127 non-specific DNA binding site [nucleotide binding]; other site 1288122009128 salt bridge; other site 1288122009129 sequence-specific DNA binding site [nucleotide binding]; other site 1288122009130 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1288122009131 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1288122009132 amidase catalytic site [active] 1288122009133 Zn binding residues [ion binding]; other site 1288122009134 substrate binding site [chemical binding]; other site 1288122009135 chorismate mutase; Provisional; Region: PRK08055 1288122009136 DNA methylase; Region: N6_N4_Mtase; cl17433 1288122009137 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122009138 S-adenosylmethionine binding site [chemical binding]; other site 1288122009139 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1288122009140 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1288122009141 lipoprotein NlpI; Provisional; Region: PRK11189 1288122009142 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 1288122009143 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1288122009144 active site 1288122009145 catalytic residues [active] 1288122009146 DNA binding site [nucleotide binding] 1288122009147 Int/Topo IB signature motif; other site 1288122009148 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 1288122009149 active site 1288122009150 Int/Topo IB signature motif; other site 1288122009151 catalytic residues [active] 1288122009152 DNA binding site [nucleotide binding] 1288122009153 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1288122009154 integrase; Provisional; Region: PRK09692 1288122009155 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1288122009156 active site 1288122009157 Int/Topo IB signature motif; other site 1288122009158 L,D-transpeptidase; Provisional; Region: PRK10260 1288122009159 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1288122009160 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1288122009161 beta-lactam binding protein AmpH; Provisional; Region: PRK10662 1288122009162 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1288122009163 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1288122009164 lipopolysaccharide ABC transporter permease LptF; Provisional; Region: PRK15120 1288122009165 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1288122009166 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1288122009167 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 1288122009168 interface (dimer of trimers) [polypeptide binding]; other site 1288122009169 Substrate-binding/catalytic site; other site 1288122009170 Zn-binding sites [ion binding]; other site 1288122009171 DNA polymerase III subunit chi; Validated; Region: PRK05728 1288122009172 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1288122009173 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1288122009174 HIGH motif; other site 1288122009175 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1288122009176 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1288122009177 active site 1288122009178 KMSKS motif; other site 1288122009179 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1288122009180 tRNA binding surface [nucleotide binding]; other site 1288122009181 anticodon binding site; other site 1288122009182 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1288122009183 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 1288122009184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122009185 dimer interface [polypeptide binding]; other site 1288122009186 conserved gate region; other site 1288122009187 putative PBP binding loops; other site 1288122009188 ABC-ATPase subunit interface; other site 1288122009189 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1288122009190 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1288122009191 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1288122009192 Walker A/P-loop; other site 1288122009193 ATP binding site [chemical binding]; other site 1288122009194 Q-loop/lid; other site 1288122009195 ABC transporter signature motif; other site 1288122009196 Walker B; other site 1288122009197 D-loop; other site 1288122009198 H-loop/switch region; other site 1288122009199 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 1288122009200 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1288122009201 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1288122009202 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 1288122009203 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 1288122009204 dimer interface [polypeptide binding]; other site 1288122009205 active site 1288122009206 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122009207 substrate binding site [chemical binding]; other site 1288122009208 catalytic residue [active] 1288122009209 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 1288122009210 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1288122009211 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1288122009212 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1288122009213 catalytic residue [active] 1288122009214 PAS fold; Region: PAS_4; pfam08448 1288122009215 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1288122009216 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122009217 Walker A motif; other site 1288122009218 ATP binding site [chemical binding]; other site 1288122009219 Walker B motif; other site 1288122009220 arginine finger; other site 1288122009221 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122009222 RNase E inhibitor protein; Provisional; Region: PRK11191 1288122009223 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1288122009224 ornithine carbamoyltransferase subunit I; Provisional; Region: PRK03515 1288122009225 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1288122009226 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1288122009227 Beta-galactosidase, beta subunit [Carbohydrate transport and metabolism]; Region: EbgC; COG2731 1288122009228 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 1288122009229 glycerol-3-phosphate dehydrogenase, anaerobic, C subunit; Region: glycerol3P_GlpC; TIGR03379 1288122009230 Cysteine-rich domain; Region: CCG; pfam02754 1288122009231 Cysteine-rich domain; Region: CCG; pfam02754 1288122009232 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 1288122009233 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1288122009234 sn-glycerol-3-phosphate dehydrogenase subunit A; Provisional; Region: glpA; PRK11101 1288122009235 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 1288122009236 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 1288122009237 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122009238 putative substrate translocation pore; other site 1288122009239 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1288122009240 Glycerophosphodiester phosphodiesterase domain of Escherichia coli (GlpQ) and similar proteins; Region: GDPD_EcGlpQ_like; cd08600 1288122009241 active site 1288122009242 catalytic site [active] 1288122009243 metal binding site [ion binding]; metal-binding site 1288122009244 putative glutathione S-transferase; Provisional; Region: PRK10357 1288122009245 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1288122009246 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1288122009247 dimer interface [polypeptide binding]; other site 1288122009248 N-terminal domain interface [polypeptide binding]; other site 1288122009249 putative substrate binding pocket (H-site) [chemical binding]; other site 1288122009250 selenocysteine synthase; Provisional; Region: PRK04311 1288122009251 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 1288122009252 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 1288122009253 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1288122009254 catalytic residue [active] 1288122009255 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 1288122009256 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 1288122009257 G1 box; other site 1288122009258 putative GEF interaction site [polypeptide binding]; other site 1288122009259 GTP/Mg2+ binding site [chemical binding]; other site 1288122009260 Switch I region; other site 1288122009261 G2 box; other site 1288122009262 G3 box; other site 1288122009263 Switch II region; other site 1288122009264 G4 box; other site 1288122009265 G5 box; other site 1288122009266 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 1288122009267 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 1288122009268 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 1288122009269 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 1288122009270 voltage-gated potassium channel; Provisional; Region: PRK10537 1288122009271 Ion channel; Region: Ion_trans_2; pfam07885 1288122009272 TrkA-N domain; Region: TrkA_N; pfam02254 1288122009273 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 1288122009274 homotrimer interaction site [polypeptide binding]; other site 1288122009275 putative active site [active] 1288122009276 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 1288122009277 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 1288122009278 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 1288122009279 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1288122009280 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1288122009281 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1288122009282 p-hydroxybenzoic acid efflux subunit AaeB; Provisional; Region: PRK10631 1288122009283 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 1288122009284 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1288122009285 HlyD family secretion protein; Region: HlyD_3; pfam13437 1288122009286 efflux system membrane protein; Provisional; Region: PRK11594 1288122009287 transcriptional regulator; Provisional; Region: PRK10632 1288122009288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122009289 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1288122009290 putative effector binding pocket; other site 1288122009291 dimerization interface [polypeptide binding]; other site 1288122009292 protease TldD; Provisional; Region: tldD; PRK10735 1288122009293 nitrilase; Region: PLN02798 1288122009294 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1288122009295 putative active site [active] 1288122009296 catalytic triad [active] 1288122009297 dimer interface [polypeptide binding]; other site 1288122009298 hypothetical protein; Provisional; Region: PRK10899 1288122009299 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1288122009300 ribonuclease G; Provisional; Region: PRK11712 1288122009301 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1288122009302 homodimer interface [polypeptide binding]; other site 1288122009303 oligonucleotide binding site [chemical binding]; other site 1288122009304 Maf-like protein; Region: Maf; pfam02545 1288122009305 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 1288122009306 active site 1288122009307 dimer interface [polypeptide binding]; other site 1288122009308 rod shape-determining protein MreD; Provisional; Region: PRK11060 1288122009309 rod shape-determining protein MreC; Region: mreC; TIGR00219 1288122009310 rod shape-determining protein MreC; Region: MreC; pfam04085 1288122009311 rod shape-determining protein MreB; Provisional; Region: PRK13927 1288122009312 MreB and similar proteins; Region: MreB_like; cd10225 1288122009313 nucleotide binding site [chemical binding]; other site 1288122009314 Mg binding site [ion binding]; other site 1288122009315 putative protofilament interaction site [polypeptide binding]; other site 1288122009316 RodZ interaction site [polypeptide binding]; other site 1288122009317 regulatory protein CsrD; Provisional; Region: PRK11059 1288122009318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122009319 metal binding site [ion binding]; metal-binding site 1288122009320 I-site; other site 1288122009321 active site 1288122009322 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122009323 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 1288122009324 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 1288122009325 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1288122009326 NADP binding site [chemical binding]; other site 1288122009327 dimer interface [polypeptide binding]; other site 1288122009328 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1288122009329 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 1288122009330 Moco binding site; other site 1288122009331 metal coordination site [ion binding]; other site 1288122009332 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1288122009333 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 1288122009334 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1288122009335 active site 1288122009336 trimer interface [polypeptide binding]; other site 1288122009337 dimer interface [polypeptide binding]; other site 1288122009338 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1288122009339 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1288122009340 carboxyltransferase (CT) interaction site; other site 1288122009341 biotinylation site [posttranslational modification]; other site 1288122009342 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1288122009343 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1288122009344 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1288122009345 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1288122009346 hypothetical protein; Provisional; Region: PRK10633 1288122009347 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 1288122009348 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1288122009349 Na binding site [ion binding]; other site 1288122009350 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1288122009351 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 1288122009352 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1288122009353 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 1288122009354 FMN binding site [chemical binding]; other site 1288122009355 active site 1288122009356 catalytic residues [active] 1288122009357 substrate binding site [chemical binding]; other site 1288122009358 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1288122009359 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 1288122009360 Uncharacterized protein conserved in archaea [Function unknown]; Region: COG1888 1288122009361 hypothetical protein; Provisional; Region: PRK10556 1288122009362 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1288122009363 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1288122009364 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122009365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122009366 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1288122009367 putative dimerization interface [polypeptide binding]; other site 1288122009368 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 1288122009369 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1288122009370 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1288122009371 guanine deaminase; Provisional; Region: PRK09228 1288122009372 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1288122009373 active site 1288122009374 xanthine permease; Region: pbuX; TIGR03173 1288122009375 putative hypoxanthine oxidase; Provisional; Region: PRK09800 1288122009376 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1288122009377 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 1288122009378 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1288122009379 putative oxidoreductase; Provisional; Region: PRK09799 1288122009380 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 1288122009381 putative chlorohydrolase/aminohydrolase; Validated; Region: PRK07203 1288122009382 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1288122009383 active site 1288122009384 putative selenate reductase subunit YgfK; Provisional; Region: PRK09853 1288122009385 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 1288122009386 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1288122009387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122009388 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1288122009389 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 1288122009390 Ligand binding site; other site 1288122009391 metal-binding site 1288122009392 probable selenium-dependent hydroxylase accessory protein YqeC; Region: TIGR03172 1288122009393 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 1288122009394 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1288122009395 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1288122009396 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 1288122009397 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 1288122009398 carbamate kinase; Reviewed; Region: PRK12686 1288122009399 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 1288122009400 putative substrate binding site [chemical binding]; other site 1288122009401 homodimer interface [polypeptide binding]; other site 1288122009402 nucleotide binding site [chemical binding]; other site 1288122009403 nucleotide binding site [chemical binding]; other site 1288122009404 phenylhydantoinase; Validated; Region: PRK08323 1288122009405 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 1288122009406 tetramer interface [polypeptide binding]; other site 1288122009407 active site 1288122009408 peptidase; Reviewed; Region: PRK13004 1288122009409 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like4; cd05649 1288122009410 putative metal binding site [ion binding]; other site 1288122009411 putative dimer interface [polypeptide binding]; other site 1288122009412 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 1288122009413 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cd00640 1288122009414 catalytic residue [active] 1288122009415 aspartate/ornithine carbamoyltransferase family protein; Validated; Region: PRK07200 1288122009416 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1288122009417 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1288122009418 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 1288122009419 GAF domain; Region: GAF; cl17456 1288122009420 PAS domain; Region: PAS; smart00091 1288122009421 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122009422 Walker A motif; other site 1288122009423 ATP binding site [chemical binding]; other site 1288122009424 Walker B motif; other site 1288122009425 arginine finger; other site 1288122009426 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122009427 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1288122009428 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 1288122009429 dimer interface [polypeptide binding]; other site 1288122009430 ssDNA binding site [nucleotide binding]; other site 1288122009431 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1288122009432 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1288122009433 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1288122009434 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1288122009435 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1288122009436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 1288122009437 Uncharacterized conserved protein [Function unknown]; Region: COG0432 1288122009438 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 1288122009439 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 1288122009440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122009441 homodimer interface [polypeptide binding]; other site 1288122009442 catalytic residue [active] 1288122009443 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1288122009444 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1288122009445 active site 1288122009446 catalytic tetrad [active] 1288122009447 hypothetical protein; Provisional; Region: PRK01254 1288122009448 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 1288122009449 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 1288122009450 homoserine O-succinyltransferase; Provisional; Region: PRK05368 1288122009451 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1288122009452 proposed active site lysine [active] 1288122009453 conserved cys residue [active] 1288122009454 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 1288122009455 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1288122009456 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1288122009457 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1288122009458 trimer interface [polypeptide binding]; other site 1288122009459 putative metal binding site [ion binding]; other site 1288122009460 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 1288122009461 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1288122009462 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1288122009463 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1288122009464 shikimate binding site; other site 1288122009465 NAD(P) binding site [chemical binding]; other site 1288122009466 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1288122009467 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1288122009468 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1288122009469 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1288122009470 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1288122009471 hypothetical protein; Validated; Region: PRK03430 1288122009472 hypothetical protein; Provisional; Region: PRK10736 1288122009473 DNA protecting protein DprA; Region: dprA; TIGR00732 1288122009474 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 1288122009475 active site 1288122009476 catalytic residues [active] 1288122009477 metal binding site [ion binding]; metal-binding site 1288122009478 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1288122009479 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1288122009480 putative active site [active] 1288122009481 substrate binding site [chemical binding]; other site 1288122009482 putative cosubstrate binding site; other site 1288122009483 catalytic site [active] 1288122009484 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1288122009485 substrate binding site [chemical binding]; other site 1288122009486 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1288122009487 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 1288122009488 putative RNA binding site [nucleotide binding]; other site 1288122009489 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122009490 S-adenosylmethionine binding site [chemical binding]; other site 1288122009491 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1288122009492 TrkA-N domain; Region: TrkA_N; pfam02254 1288122009493 TrkA-C domain; Region: TrkA_C; pfam02080 1288122009494 TrkA-N domain; Region: TrkA_N; pfam02254 1288122009495 TrkA-C domain; Region: TrkA_C; pfam02080 1288122009496 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1288122009497 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1288122009498 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1288122009499 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1288122009500 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 1288122009501 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 1288122009502 DNA binding residues [nucleotide binding] 1288122009503 dimer interface [polypeptide binding]; other site 1288122009504 metal binding site [ion binding]; metal-binding site 1288122009505 hypothetical protein; Provisional; Region: PRK10203 1288122009506 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1288122009507 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1288122009508 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1288122009509 alphaNTD homodimer interface [polypeptide binding]; other site 1288122009510 alphaNTD - beta interaction site [polypeptide binding]; other site 1288122009511 alphaNTD - beta' interaction site [polypeptide binding]; other site 1288122009512 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1288122009513 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1288122009514 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1288122009515 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122009516 RNA binding surface [nucleotide binding]; other site 1288122009517 30S ribosomal protein S11; Validated; Region: PRK05309 1288122009518 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1288122009519 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1288122009520 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 1288122009521 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1288122009522 SecY translocase; Region: SecY; pfam00344 1288122009523 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1288122009524 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1288122009525 23S rRNA binding site [nucleotide binding]; other site 1288122009526 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1288122009527 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1288122009528 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1288122009529 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 1288122009530 23S rRNA interface [nucleotide binding]; other site 1288122009531 5S rRNA interface [nucleotide binding]; other site 1288122009532 L27 interface [polypeptide binding]; other site 1288122009533 L5 interface [polypeptide binding]; other site 1288122009534 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1288122009535 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1288122009536 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1288122009537 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1288122009538 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1288122009539 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1288122009540 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1288122009541 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1288122009542 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1288122009543 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1288122009544 RNA binding site [nucleotide binding]; other site 1288122009545 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1288122009546 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1288122009547 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1288122009548 23S rRNA interface [nucleotide binding]; other site 1288122009549 putative translocon interaction site; other site 1288122009550 signal recognition particle (SRP54) interaction site; other site 1288122009551 L23 interface [polypeptide binding]; other site 1288122009552 trigger factor interaction site; other site 1288122009553 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 1288122009554 23S rRNA interface [nucleotide binding]; other site 1288122009555 5S rRNA interface [nucleotide binding]; other site 1288122009556 putative antibiotic binding site [chemical binding]; other site 1288122009557 L25 interface [polypeptide binding]; other site 1288122009558 L27 interface [polypeptide binding]; other site 1288122009559 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1288122009560 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 1288122009561 G-X-X-G motif; other site 1288122009562 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1288122009563 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 1288122009564 protein-rRNA interface [nucleotide binding]; other site 1288122009565 putative translocon binding site; other site 1288122009566 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1288122009567 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1288122009568 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1288122009569 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1288122009570 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1288122009571 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1288122009572 50S ribosomal protein L3, bacterial; Region: L3_bact; TIGR03625 1288122009573 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1288122009574 elongation factor Tu; Reviewed; Region: PRK00049 1288122009575 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1288122009576 G1 box; other site 1288122009577 GEF interaction site [polypeptide binding]; other site 1288122009578 GTP/Mg2+ binding site [chemical binding]; other site 1288122009579 Switch I region; other site 1288122009580 G2 box; other site 1288122009581 G3 box; other site 1288122009582 Switch II region; other site 1288122009583 G4 box; other site 1288122009584 G5 box; other site 1288122009585 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 1288122009586 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 1288122009587 Antibiotic Binding Site [chemical binding]; other site 1288122009588 elongation factor G; Reviewed; Region: PRK00007 1288122009589 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1288122009590 G1 box; other site 1288122009591 putative GEF interaction site [polypeptide binding]; other site 1288122009592 GTP/Mg2+ binding site [chemical binding]; other site 1288122009593 Switch I region; other site 1288122009594 G2 box; other site 1288122009595 G3 box; other site 1288122009596 Switch II region; other site 1288122009597 G4 box; other site 1288122009598 G5 box; other site 1288122009599 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 1288122009600 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 1288122009601 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 1288122009602 30S ribosomal protein S7; Validated; Region: PRK05302 1288122009603 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 1288122009604 S17 interaction site [polypeptide binding]; other site 1288122009605 S8 interaction site; other site 1288122009606 16S rRNA interaction site [nucleotide binding]; other site 1288122009607 streptomycin interaction site [chemical binding]; other site 1288122009608 23S rRNA interaction site [nucleotide binding]; other site 1288122009609 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1288122009610 DsrH like protein; Region: DsrH; cl17347 1288122009611 sulfur relay protein TusC; Validated; Region: PRK00211 1288122009612 sulfur transfer complex subunit TusD; Validated; Region: PRK00207 1288122009613 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 1288122009614 YheO-like PAS domain; Region: PAS_6; pfam08348 1288122009615 HTH domain; Region: HTH_22; pfam13309 1288122009616 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1288122009617 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1288122009618 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122009619 phi X174 lysis protein; Provisional; Region: PRK02793 1288122009620 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1288122009621 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1288122009622 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1288122009623 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1288122009624 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 1288122009625 TrkA-N domain; Region: TrkA_N; pfam02254 1288122009626 glutathione-regulated potassium-efflux system ancillary protein KefG; Provisional; Region: PRK04930 1288122009627 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1288122009628 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122009629 Walker A/P-loop; other site 1288122009630 ATP binding site [chemical binding]; other site 1288122009631 Q-loop/lid; other site 1288122009632 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122009633 ABC transporter; Region: ABC_tran_2; pfam12848 1288122009634 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1288122009635 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1288122009636 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 1288122009637 inhibitor-cofactor binding pocket; inhibition site 1288122009638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122009639 catalytic residue [active] 1288122009640 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1288122009641 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1288122009642 glutamine binding [chemical binding]; other site 1288122009643 catalytic triad [active] 1288122009644 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 1288122009645 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 1288122009646 substrate binding site [chemical binding]; other site 1288122009647 putative transporter; Provisional; Region: PRK03699 1288122009648 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122009649 putative substrate translocation pore; other site 1288122009650 cytosine deaminase; Provisional; Region: PRK09230 1288122009651 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 1288122009652 active site 1288122009653 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 1288122009654 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1288122009655 Na binding site [ion binding]; other site 1288122009656 putative substrate binding site [chemical binding]; other site 1288122009657 siroheme synthase; Provisional; Region: cysG; PRK10637 1288122009658 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1288122009659 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1288122009660 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1288122009661 active site 1288122009662 SAM binding site [chemical binding]; other site 1288122009663 homodimer interface [polypeptide binding]; other site 1288122009664 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1288122009665 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1288122009666 active site 1288122009667 HIGH motif; other site 1288122009668 dimer interface [polypeptide binding]; other site 1288122009669 KMSKS motif; other site 1288122009670 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1288122009671 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122009672 motif II; other site 1288122009673 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 1288122009674 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1288122009675 substrate binding site [chemical binding]; other site 1288122009676 hexamer interface [polypeptide binding]; other site 1288122009677 metal binding site [ion binding]; metal-binding site 1288122009678 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1288122009679 hypothetical protein; Reviewed; Region: PRK11901 1288122009680 cell division protein DamX; Validated; Region: PRK10905 1288122009681 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1288122009682 active site 1288122009683 dimer interface [polypeptide binding]; other site 1288122009684 metal binding site [ion binding]; metal-binding site 1288122009685 shikimate kinase; Reviewed; Region: aroK; PRK00131 1288122009686 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1288122009687 ADP binding site [chemical binding]; other site 1288122009688 magnesium binding site [ion binding]; other site 1288122009689 putative shikimate binding site; other site 1288122009690 putative outer membrane porin HofQ; Provisional; Region: hofQ; PRK13568 1288122009691 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1288122009692 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1288122009693 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1288122009694 Transglycosylase; Region: Transgly; pfam00912 1288122009695 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1288122009696 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1288122009697 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1288122009698 ADP-ribose binding site [chemical binding]; other site 1288122009699 dimer interface [polypeptide binding]; other site 1288122009700 active site 1288122009701 nudix motif; other site 1288122009702 metal binding site [ion binding]; metal-binding site 1288122009703 Intracellular growth attenuator protein IgaA; Region: IgaA; pfam07095 1288122009704 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1288122009705 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122009706 motif II; other site 1288122009707 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 1288122009708 RNA binding surface [nucleotide binding]; other site 1288122009709 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1288122009710 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 1288122009711 dimerization interface [polypeptide binding]; other site 1288122009712 domain crossover interface; other site 1288122009713 redox-dependent activation switch; other site 1288122009714 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 1288122009715 thiosulfate reductase cytochrome B subunit; Provisional; Region: PRK15006 1288122009716 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 1288122009717 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 1288122009718 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1288122009719 active site residue [active] 1288122009720 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1288122009721 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 1288122009722 active site 1288122009723 substrate-binding site [chemical binding]; other site 1288122009724 metal-binding site [ion binding] 1288122009725 ATP binding site [chemical binding]; other site 1288122009726 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1288122009727 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122009728 dimerization interface [polypeptide binding]; other site 1288122009729 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122009730 dimer interface [polypeptide binding]; other site 1288122009731 phosphorylation site [posttranslational modification] 1288122009732 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122009733 ATP binding site [chemical binding]; other site 1288122009734 Mg2+ binding site [ion binding]; other site 1288122009735 G-X-G motif; other site 1288122009736 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1288122009737 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122009738 active site 1288122009739 phosphorylation site [posttranslational modification] 1288122009740 intermolecular recognition site; other site 1288122009741 dimerization interface [polypeptide binding]; other site 1288122009742 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122009743 DNA binding site [nucleotide binding] 1288122009744 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1288122009745 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1288122009746 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1288122009747 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1288122009748 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1288122009749 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1288122009750 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1288122009751 RNA binding site [nucleotide binding]; other site 1288122009752 ferrous iron transport protein A; Reviewed; Region: feoA; PRK09555 1288122009753 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1288122009754 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1288122009755 G1 box; other site 1288122009756 GTP/Mg2+ binding site [chemical binding]; other site 1288122009757 Switch I region; other site 1288122009758 G2 box; other site 1288122009759 G3 box; other site 1288122009760 Switch II region; other site 1288122009761 G4 box; other site 1288122009762 G5 box; other site 1288122009763 Nucleoside recognition; Region: Gate; pfam07670 1288122009764 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1288122009765 Nucleoside recognition; Region: Gate; pfam07670 1288122009766 FeoC like transcriptional regulator; Region: FeoC; cl17677 1288122009767 carboxylesterase BioH; Provisional; Region: PRK10349 1288122009768 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1288122009769 DNA utilization protein GntX; Provisional; Region: PRK11595 1288122009770 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1288122009771 active site 1288122009772 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1288122009773 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1288122009774 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1288122009775 transcriptional repressor UlaR; Provisional; Region: PRK13509 1288122009776 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1288122009777 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122009778 putative L-ascorbate 6-phosphate lactonase; Provisional; Region: PRK11709 1288122009779 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1288122009780 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SgaT; COG3037 1288122009781 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 1288122009782 active site 1288122009783 P-loop; other site 1288122009784 phosphorylation site [posttranslational modification] 1288122009785 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1288122009786 active site 1288122009787 phosphorylation site [posttranslational modification] 1288122009788 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 1288122009789 active site 1288122009790 dimer interface [polypeptide binding]; other site 1288122009791 magnesium binding site [ion binding]; other site 1288122009792 L-xylulose 5-phosphate 3-epimerase; Reviewed; Region: PRK13209 1288122009793 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 1288122009794 AP (apurinic/apyrimidinic) site pocket; other site 1288122009795 DNA interaction; other site 1288122009796 Metal-binding active site; metal-binding site 1288122009797 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1288122009798 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1288122009799 intersubunit interface [polypeptide binding]; other site 1288122009800 active site 1288122009801 Zn2+ binding site [ion binding]; other site 1288122009802 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 1288122009803 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 1288122009804 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1288122009805 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 1288122009806 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 1288122009807 ligand binding site [chemical binding]; other site 1288122009808 flexible hinge region; other site 1288122009809 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 1288122009810 putative switch regulator; other site 1288122009811 non-specific DNA interactions [nucleotide binding]; other site 1288122009812 DNA binding site [nucleotide binding] 1288122009813 sequence specific DNA binding site [nucleotide binding]; other site 1288122009814 putative cAMP binding site [chemical binding]; other site 1288122009815 hypothetical protein; Provisional; Region: PRK04966 1288122009816 putative hydrolase; Provisional; Region: PRK10985 1288122009817 N terminus of Rad21 / Rec8 like protein; Region: Rad21_Rec8_N; pfam04825 1288122009818 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1288122009819 transcriptional regulator MalT; Provisional; Region: PRK04841 1288122009820 AAA ATPase domain; Region: AAA_16; pfam13191 1288122009821 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122009822 DNA binding residues [nucleotide binding] 1288122009823 dimerization interface [polypeptide binding]; other site 1288122009824 maltodextrin phosphorylase; Provisional; Region: PRK14985 1288122009825 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1288122009826 homodimer interface [polypeptide binding]; other site 1288122009827 active site pocket [active] 1288122009828 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 1288122009829 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 1288122009830 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1288122009831 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1288122009832 ligand binding site; other site 1288122009833 oligomer interface; other site 1288122009834 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1288122009835 N-terminal domain interface [polypeptide binding]; other site 1288122009836 sulfate 1 binding site; other site 1288122009837 glycogen branching enzyme; Provisional; Region: PRK05402 1288122009838 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1288122009839 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1288122009840 active site 1288122009841 catalytic site [active] 1288122009842 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 1288122009843 glycogen debranching enzyme; Provisional; Region: PRK03705 1288122009844 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 1288122009845 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 1288122009846 active site 1288122009847 catalytic site [active] 1288122009848 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 1288122009849 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1288122009850 ligand binding site; other site 1288122009851 oligomer interface; other site 1288122009852 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1288122009853 dimer interface [polypeptide binding]; other site 1288122009854 N-terminal domain interface [polypeptide binding]; other site 1288122009855 sulfate 1 binding site; other site 1288122009856 glycogen synthase; Provisional; Region: glgA; PRK00654 1288122009857 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1288122009858 ADP-binding pocket [chemical binding]; other site 1288122009859 homodimer interface [polypeptide binding]; other site 1288122009860 glycogen phosphorylase; Provisional; Region: PRK14986 1288122009861 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1288122009862 homodimer interface [polypeptide binding]; other site 1288122009863 active site pocket [active] 1288122009864 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1288122009865 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 1288122009866 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1288122009867 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1288122009868 intramembrane serine protease GlpG; Provisional; Region: PRK10907 1288122009869 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1288122009870 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1288122009871 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 1288122009872 active site residue [active] 1288122009873 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 1288122009874 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 1288122009875 putative active site [active] 1288122009876 catalytic site [active] 1288122009877 putative metal binding site [ion binding]; other site 1288122009878 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1288122009879 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1288122009880 Walker A/P-loop; other site 1288122009881 ATP binding site [chemical binding]; other site 1288122009882 Q-loop/lid; other site 1288122009883 ABC transporter signature motif; other site 1288122009884 Walker B; other site 1288122009885 D-loop; other site 1288122009886 H-loop/switch region; other site 1288122009887 TOBE domain; Region: TOBE_2; pfam08402 1288122009888 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1288122009889 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122009890 dimer interface [polypeptide binding]; other site 1288122009891 conserved gate region; other site 1288122009892 putative PBP binding loops; other site 1288122009893 ABC-ATPase subunit interface; other site 1288122009894 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1288122009895 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122009896 dimer interface [polypeptide binding]; other site 1288122009897 conserved gate region; other site 1288122009898 putative PBP binding loops; other site 1288122009899 ABC-ATPase subunit interface; other site 1288122009900 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 1288122009901 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1288122009902 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 1288122009903 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 1288122009904 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 1288122009905 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1288122009906 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 1288122009907 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 1288122009908 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 1288122009909 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1288122009910 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1288122009911 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1288122009912 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1288122009913 DNA binding residues [nucleotide binding] 1288122009914 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1288122009915 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1288122009916 cell division protein FtsE; Provisional; Region: PRK10908 1288122009917 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1288122009918 Walker A/P-loop; other site 1288122009919 ATP binding site [chemical binding]; other site 1288122009920 Q-loop/lid; other site 1288122009921 ABC transporter signature motif; other site 1288122009922 Walker B; other site 1288122009923 D-loop; other site 1288122009924 H-loop/switch region; other site 1288122009925 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1288122009926 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1288122009927 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 1288122009928 P loop; other site 1288122009929 GTP binding site [chemical binding]; other site 1288122009930 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1288122009931 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122009932 S-adenosylmethionine binding site [chemical binding]; other site 1288122009933 hypothetical protein; Provisional; Region: PRK10910 1288122009934 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 1288122009935 Domain of unknown function (DUF1820); Region: DUF1820; pfam08850 1288122009936 Predicted membrane protein [Function unknown]; Region: COG3714 1288122009937 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 1288122009938 MOSC domain; Region: MOSC; pfam03473 1288122009939 3-alpha domain; Region: 3-alpha; pfam03475 1288122009940 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 1288122009941 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122009942 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 1288122009943 molybdopterin cofactor binding site; other site 1288122009944 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 1288122009945 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 1288122009946 molybdopterin cofactor binding site; other site 1288122009947 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 1288122009948 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 1288122009949 formate dehydrogenase-N subunit gamma; Provisional; Region: PRK10179 1288122009950 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 1288122009951 formate dehydrogenase accessory protein FdhE; Provisional; Region: PRK03564 1288122009952 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 1288122009953 putative hydrolase; Provisional; Region: PRK10976 1288122009954 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122009955 active site 1288122009956 motif I; other site 1288122009957 motif II; other site 1288122009958 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1288122009959 lysophospholipase L2; Provisional; Region: PRK10749 1288122009960 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1288122009961 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 1288122009962 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1288122009963 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 1288122009964 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 1288122009965 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1288122009966 Histidine kinase; Region: His_kinase; pfam06580 1288122009967 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122009968 ATP binding site [chemical binding]; other site 1288122009969 Mg2+ binding site [ion binding]; other site 1288122009970 G-X-G motif; other site 1288122009971 magnesium-transporting ATPase; Provisional; Region: PRK15122 1288122009972 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1288122009973 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1288122009974 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1288122009975 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122009976 motif II; other site 1288122009977 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1288122009978 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1288122009979 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1288122009980 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1288122009981 Na2 binding site [ion binding]; other site 1288122009982 putative substrate binding site 1 [chemical binding]; other site 1288122009983 Na binding site 1 [ion binding]; other site 1288122009984 putative substrate binding site 2 [chemical binding]; other site 1288122009985 universal stress protein UspB; Provisional; Region: PRK04960 1288122009986 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122009987 Ligand Binding Site [chemical binding]; other site 1288122009988 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 1288122009989 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122009990 putative substrate translocation pore; other site 1288122009991 POT family; Region: PTR2; pfam00854 1288122009992 glutamate dehydrogenase; Provisional; Region: PRK09414 1288122009993 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1288122009994 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1288122009995 NAD(P) binding site [chemical binding]; other site 1288122009996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1288122009997 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1288122009998 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122009999 dimer interface [polypeptide binding]; other site 1288122010000 phosphorylation site [posttranslational modification] 1288122010001 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122010002 ATP binding site [chemical binding]; other site 1288122010003 Mg2+ binding site [ion binding]; other site 1288122010004 G-X-G motif; other site 1288122010005 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1288122010006 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122010007 active site 1288122010008 phosphorylation site [posttranslational modification] 1288122010009 intermolecular recognition site; other site 1288122010010 dimerization interface [polypeptide binding]; other site 1288122010011 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122010012 DNA binding site [nucleotide binding] 1288122010013 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 1288122010014 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1288122010015 ligand binding site [chemical binding]; other site 1288122010016 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1288122010017 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1288122010018 Walker A/P-loop; other site 1288122010019 ATP binding site [chemical binding]; other site 1288122010020 Q-loop/lid; other site 1288122010021 ABC transporter signature motif; other site 1288122010022 Walker B; other site 1288122010023 D-loop; other site 1288122010024 H-loop/switch region; other site 1288122010025 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1288122010026 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1288122010027 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1288122010028 TM-ABC transporter signature motif; other site 1288122010029 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1288122010030 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1288122010031 TM-ABC transporter signature motif; other site 1288122010032 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1288122010033 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1288122010034 N- and C-terminal domain interface [polypeptide binding]; other site 1288122010035 active site 1288122010036 MgATP binding site [chemical binding]; other site 1288122010037 catalytic site [active] 1288122010038 metal binding site [ion binding]; metal-binding site 1288122010039 carbohydrate binding site [chemical binding]; other site 1288122010040 putative homodimer interface [polypeptide binding]; other site 1288122010041 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1288122010042 putative active site [active] 1288122010043 putative methyltransferase; Provisional; Region: PRK10742 1288122010044 oligopeptidase A; Provisional; Region: PRK10911 1288122010045 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1288122010046 active site 1288122010047 Zn binding site [ion binding]; other site 1288122010048 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1288122010049 nucleotide binding site/active site [active] 1288122010050 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1288122010051 glutathione reductase; Validated; Region: PRK06116 1288122010052 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1288122010053 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122010054 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122010055 methyl-accepting chemotaxis protein I; Provisional; Region: PRK15041 1288122010056 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1288122010057 dimer interface [polypeptide binding]; other site 1288122010058 ligand binding site [chemical binding]; other site 1288122010059 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1288122010060 dimerization interface [polypeptide binding]; other site 1288122010061 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122010062 dimer interface [polypeptide binding]; other site 1288122010063 putative CheW interface [polypeptide binding]; other site 1288122010064 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1288122010065 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1288122010066 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 1288122010067 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1288122010068 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1288122010069 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 1288122010070 CDP-diacylglycerol pyrophosphatase; Provisional; Region: PRK05471 1288122010071 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122010072 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122010073 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1288122010074 substrate binding site [chemical binding]; other site 1288122010075 ATP binding site [chemical binding]; other site 1288122010076 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1288122010077 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1288122010078 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 1288122010079 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1288122010080 biofilm formation regulator HmsP; Provisional; Region: PRK11829 1288122010081 HAMP domain; Region: HAMP; pfam00672 1288122010082 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1288122010083 metal binding site [ion binding]; metal-binding site 1288122010084 active site 1288122010085 I-site; other site 1288122010086 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 1288122010087 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 1288122010088 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122010089 binding surface 1288122010090 TPR motif; other site 1288122010091 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1288122010092 TPR motif; other site 1288122010093 binding surface 1288122010094 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 1288122010095 endo-1,4-D-glucanase; Provisional; Region: PRK11097 1288122010096 cellulose synthase regulator protein; Provisional; Region: PRK11114 1288122010097 cellulose synthase catalytic subunit; Provisional; Region: bcsA; PRK11498 1288122010098 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 1288122010099 DXD motif; other site 1288122010100 Cellulose synthase-like protein; Region: PLN02893 1288122010101 PilZ domain; Region: PilZ; pfam07238 1288122010102 YhjQ protein; Region: YhjQ; pfam06564 1288122010103 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 1288122010104 cellulose biosynthesis protein BcsE; Provisional; Region: PRK15045 1288122010105 Protein of unknown function (DUF2819); Region: DUF2819; pfam10995 1288122010106 Protein of unknown function (DUF3260); Region: DUF3260; pfam11658 1288122010107 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1288122010108 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122010109 Walker A/P-loop; other site 1288122010110 ATP binding site [chemical binding]; other site 1288122010111 Q-loop/lid; other site 1288122010112 ABC transporter signature motif; other site 1288122010113 Walker B; other site 1288122010114 D-loop; other site 1288122010115 H-loop/switch region; other site 1288122010116 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1288122010117 dipeptide transporter ATP-binding subunit; Provisional; Region: dppD; PRK11022 1288122010118 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1288122010119 Walker A/P-loop; other site 1288122010120 ATP binding site [chemical binding]; other site 1288122010121 Q-loop/lid; other site 1288122010122 ABC transporter signature motif; other site 1288122010123 Walker B; other site 1288122010124 D-loop; other site 1288122010125 H-loop/switch region; other site 1288122010126 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1288122010127 dipeptide transporter; Provisional; Region: PRK10913 1288122010128 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122010129 putative PBP binding loops; other site 1288122010130 dimer interface [polypeptide binding]; other site 1288122010131 ABC-ATPase subunit interface; other site 1288122010132 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1288122010133 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122010134 dimer interface [polypeptide binding]; other site 1288122010135 conserved gate region; other site 1288122010136 putative PBP binding loops; other site 1288122010137 ABC-ATPase subunit interface; other site 1288122010138 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1288122010139 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1288122010140 peptide binding site [polypeptide binding]; other site 1288122010141 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 1288122010142 putative deacylase active site [active] 1288122010143 regulatory protein UhpC; Provisional; Region: PRK11663 1288122010144 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122010145 putative substrate translocation pore; other site 1288122010146 sensory histidine kinase UhpB; Provisional; Region: PRK11644 1288122010147 MASE1; Region: MASE1; cl17823 1288122010148 MASE1; Region: MASE1; pfam05231 1288122010149 Histidine kinase; Region: HisKA_3; pfam07730 1288122010150 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122010151 ATP binding site [chemical binding]; other site 1288122010152 Mg2+ binding site [ion binding]; other site 1288122010153 G-X-G motif; other site 1288122010154 DNA-binding transcriptional activator UhpA; Provisional; Region: PRK10360 1288122010155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122010156 active site 1288122010157 phosphorylation site [posttranslational modification] 1288122010158 intermolecular recognition site; other site 1288122010159 dimerization interface [polypeptide binding]; other site 1288122010160 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1288122010161 DNA binding residues [nucleotide binding] 1288122010162 dimerization interface [polypeptide binding]; other site 1288122010163 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 1288122010164 ligand binding site [chemical binding]; other site 1288122010165 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1288122010166 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1288122010167 dimerization interface [polypeptide binding]; other site 1288122010168 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1288122010169 dimer interface [polypeptide binding]; other site 1288122010170 putative CheW interface [polypeptide binding]; other site 1288122010171 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1288122010172 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1288122010173 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 1288122010174 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 1288122010175 active site 1288122010176 metal binding site [ion binding]; metal-binding site 1288122010177 nudix motif; other site 1288122010178 DNA-binding transcriptional regulator GadX; Provisional; Region: PRK09978 1288122010179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1288122010180 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1288122010181 Ligand Binding Site [chemical binding]; other site 1288122010182 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1288122010183 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 1288122010184 Integrase core domain; Region: rve_3; cl15866 1288122010185 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1288122010186 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 1288122010187 putative catalytic residues [active] 1288122010188 putative nucleotide binding site [chemical binding]; other site 1288122010189 putative aspartate binding site [chemical binding]; other site 1288122010190 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase); Region: ACT_AK-like_2; cd04892 1288122010191 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1288122010192 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1288122010193 cystathionine gamma-synthase; Provisional; Region: PRK08045 1288122010194 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 1288122010195 homodimer interface [polypeptide binding]; other site 1288122010196 substrate-cofactor binding pocket; other site 1288122010197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1288122010198 catalytic residue [active] 1288122010199 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 1288122010200 dimerization interface [polypeptide binding]; other site 1288122010201 DNA binding site [nucleotide binding] 1288122010202 corepressor binding sites; other site 1288122010203 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1288122010204 primosome assembly protein PriA; Validated; Region: PRK05580 1288122010205 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 1288122010206 ATP binding site [chemical binding]; other site 1288122010207 putative Mg++ binding site [ion binding]; other site 1288122010208 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1288122010209 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122010210 DNA binding site [nucleotide binding] 1288122010211 DNA-binding transcriptional regulator CytR; Provisional; Region: PRK11041 1288122010212 domain linker motif; other site 1288122010213 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 1288122010214 dimerization interface [polypeptide binding]; other site 1288122010215 ligand binding site [chemical binding]; other site 1288122010216 cell division protein FtsN; Provisional; Region: PRK12757 1288122010217 Sporulation related domain; Region: SPOR; cl10051 1288122010218 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1288122010219 active site 1288122010220 HslU subunit interaction site [polypeptide binding]; other site 1288122010221 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1288122010222 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122010223 Walker A motif; other site 1288122010224 ATP binding site [chemical binding]; other site 1288122010225 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122010226 Walker B motif; other site 1288122010227 arginine finger; other site 1288122010228 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1288122010229 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 1288122010230 UbiA prenyltransferase family; Region: UbiA; pfam01040 1288122010231 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1288122010232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3074 1288122010233 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1288122010234 amphipathic channel; other site 1288122010235 Asn-Pro-Ala signature motifs; other site 1288122010236 glycerol kinase; Provisional; Region: glpK; PRK00047 1288122010237 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1288122010238 N- and C-terminal domain interface [polypeptide binding]; other site 1288122010239 active site 1288122010240 MgATP binding site [chemical binding]; other site 1288122010241 catalytic site [active] 1288122010242 metal binding site [ion binding]; metal-binding site 1288122010243 glycerol binding site [chemical binding]; other site 1288122010244 homotetramer interface [polypeptide binding]; other site 1288122010245 homodimer interface [polypeptide binding]; other site 1288122010246 FBP binding site [chemical binding]; other site 1288122010247 protein IIAGlc interface [polypeptide binding]; other site 1288122010248 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 1288122010249 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1288122010250 putative active site [active] 1288122010251 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 1288122010252 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122010253 putative substrate translocation pore; other site 1288122010254 Predicted transcriptional regulator [Transcription]; Region: COG2345 1288122010255 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1288122010256 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1288122010257 FAD binding pocket [chemical binding]; other site 1288122010258 FAD binding motif [chemical binding]; other site 1288122010259 phosphate binding motif [ion binding]; other site 1288122010260 beta-alpha-beta structure motif; other site 1288122010261 NAD binding pocket [chemical binding]; other site 1288122010262 Predicted membrane protein [Function unknown]; Region: COG3152 1288122010263 Protein of unknown function (DUF1454); Region: DUF1454; pfam07305 1288122010264 triosephosphate isomerase; Provisional; Region: PRK14567 1288122010265 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 1288122010266 substrate binding site [chemical binding]; other site 1288122010267 dimer interface [polypeptide binding]; other site 1288122010268 catalytic triad [active] 1288122010269 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1288122010270 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1288122010271 active site 1288122010272 ADP/pyrophosphate binding site [chemical binding]; other site 1288122010273 dimerization interface [polypeptide binding]; other site 1288122010274 allosteric effector site; other site 1288122010275 fructose-1,6-bisphosphate binding site; other site 1288122010276 ferrous iron efflux protein F; Reviewed; Region: fieF; PRK09509 1288122010277 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1288122010278 DNA-binding transcriptional regulator; Provisional; Region: PRK09678 1288122010279 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 1288122010280 tail protein; Provisional; Region: D; PHA02561 1288122010281 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 1288122010282 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 1288122010283 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 1288122010284 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 1288122010285 major tail tube protein; Provisional; Region: FII; PHA02600 1288122010286 major tail sheath protein; Provisional; Region: FI; PHA02560 1288122010287 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 1288122010288 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 1288122010289 Phage tail fibre repeat; Region: Phage_fiber_2; pfam03406 1288122010290 Bacteriophage P2-related tail formation protein [General function prediction only]; Region: gpI; COG4385 1288122010291 baseplate assembly protein; Provisional; Region: J; PHA02568 1288122010292 baseplate wedge subunit; Provisional; Region: W; PHA02516 1288122010293 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 1288122010294 Phage P2 baseplate assembly protein gpV [General function prediction only]; Region: gpV; COG4540 1288122010295 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 1288122010296 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 1288122010297 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 1288122010298 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 1288122010299 catalytic residues [active] 1288122010300 Phage Tail Protein X; Region: Phage_tail_X; pfam05489 1288122010301 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 1288122010302 terminase endonuclease subunit; Provisional; Region: M; PHA02537 1288122010303 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 1288122010304 Phage major capsid protein, P2 family; Region: Phage_cap_P2; pfam05125 1288122010305 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; pfam05929 1288122010306 terminase ATPase subunit; Provisional; Region: P; PHA02535 1288122010307 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 1288122010308 terminase ATPase subunit; Provisional; Region: P; PHA02535 1288122010309 portal vertex protein; Provisional; Region: Q; PHA02536 1288122010310 Phage portal protein; Region: Phage_portal; pfam04860 1288122010311 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 1288122010312 DksA-like zinc finger domain containing protein; Region: PHA00080 1288122010313 Protein of unknown function (DUF2732); Region: DUF2732; pfam10809 1288122010314 Regulatory phage protein cox; Region: Phage_Cox; pfam10743 1288122010315 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1288122010316 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1288122010317 non-specific DNA binding site [nucleotide binding]; other site 1288122010318 salt bridge; other site 1288122010319 sequence-specific DNA binding site [nucleotide binding]; other site 1288122010320 integrase; Provisional; Region: int; PHA02601 1288122010321 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1288122010322 active site 1288122010323 DNA binding site [nucleotide binding] 1288122010324 Int/Topo IB signature motif; other site 1288122010325 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 1288122010326 dimer interface [polypeptide binding]; other site 1288122010327 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 1288122010328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122010329 active site 1288122010330 phosphorylation site [posttranslational modification] 1288122010331 intermolecular recognition site; other site 1288122010332 dimerization interface [polypeptide binding]; other site 1288122010333 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1288122010334 DNA binding site [nucleotide binding] 1288122010335 two-component sensor protein; Provisional; Region: cpxA; PRK09470 1288122010336 HAMP domain; Region: HAMP; pfam00672 1288122010337 dimerization interface [polypeptide binding]; other site 1288122010338 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122010339 dimer interface [polypeptide binding]; other site 1288122010340 phosphorylation site [posttranslational modification] 1288122010341 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122010342 ATP binding site [chemical binding]; other site 1288122010343 Mg2+ binding site [ion binding]; other site 1288122010344 G-X-G motif; other site 1288122010345 putative rRNA methylase; Provisional; Region: PRK10358 1288122010346 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1288122010347 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 1288122010348 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 1288122010349 trimer interface [polypeptide binding]; other site 1288122010350 active site 1288122010351 substrate binding site [chemical binding]; other site 1288122010352 CoA binding site [chemical binding]; other site 1288122010353 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1288122010354 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1288122010355 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1288122010356 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cd00557 1288122010357 SecA binding site; other site 1288122010358 Preprotein binding site; other site 1288122010359 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1288122010360 GSH binding site [chemical binding]; other site 1288122010361 catalytic residues [active] 1288122010362 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 1288122010363 active site residue [active] 1288122010364 phosphoglyceromutase; Provisional; Region: PRK05434 1288122010365 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1288122010366 AmiB activator; Provisional; Region: PRK11637 1288122010367 Peptidase family M23; Region: Peptidase_M23; pfam01551 1288122010368 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1288122010369 NodB motif; other site 1288122010370 putative active site [active] 1288122010371 putative catalytic site [active] 1288122010372 Zn binding site [ion binding]; other site 1288122010373 hypothetical protein; Provisional; Region: PRK11027 1288122010374 transcriptional regulator HdfR; Provisional; Region: PRK03601 1288122010375 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122010376 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1288122010377 dimerization interface [polypeptide binding]; other site 1288122010378 glutamate racemase; Provisional; Region: PRK00865 1288122010379 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 1288122010380 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1288122010381 N-terminal plug; other site 1288122010382 ligand-binding site [chemical binding]; other site 1288122010383 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122010384 active site 1288122010385 motif I; other site 1288122010386 motif II; other site 1288122010387 acid phosphatase/phosphotransferase; Provisional; Region: aphA; PRK11009 1288122010388 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1288122010389 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 1288122010390 eyelet of channel; other site 1288122010391 trimer interface [polypeptide binding]; other site 1288122010392 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1288122010393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122010394 S-adenosylmethionine binding site [chemical binding]; other site 1288122010395 Protein of unknown function (DUF1422); Region: DUF1422; cl11649 1288122010396 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1288122010397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122010398 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1288122010399 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122010400 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122010401 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1288122010402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1288122010403 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 1288122010404 dimerization interface [polypeptide binding]; other site 1288122010405 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1288122010406 catalytic triad [active] 1288122010407 dimer interface [polypeptide binding]; other site 1288122010408 Glutaredoxin (GRX) family, PRX5 hybrid subfamily; composed of hybrid proteins containing peroxiredoxin (PRX) and GRX domains, which is found in some pathogenic bacteria and cyanobacteria. PRXs are thiol-specific antioxidant (TSA) proteins that confer a...; Region: GRX_hybridPRX5; cd03029 1288122010409 GSH binding site [chemical binding]; other site 1288122010410 catalytic residues [active] 1288122010411 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 1288122010412 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1288122010413 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1288122010414 argininosuccinate lyase; Provisional; Region: PRK04833 1288122010415 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1288122010416 active sites [active] 1288122010417 tetramer interface [polypeptide binding]; other site 1288122010418 argininosuccinate synthase; Provisional; Region: PRK13820 1288122010419 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 1288122010420 ANP binding site [chemical binding]; other site 1288122010421 Substrate Binding Site II [chemical binding]; other site 1288122010422 Substrate Binding Site I [chemical binding]; other site 1288122010423 AAK_NAGK-NC: N-Acetyl-L-glutamate kinase - noncyclic (NAGK-NC) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of microbial arginine biosynthesis using the acetylated, noncyclic route of...; Region: AAK_NAGK-NC; cd04249 1288122010424 nucleotide binding site [chemical binding]; other site 1288122010425 N-acetyl-L-glutamate binding site [chemical binding]; other site 1288122010426 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1288122010427 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1288122010428 acetylornithine deacetylase; Provisional; Region: PRK05111 1288122010429 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1288122010430 metal binding site [ion binding]; metal-binding site 1288122010431 putative dimer interface [polypeptide binding]; other site 1288122010432 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 1288122010433 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1288122010434 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 1288122010435 FAD binding site [chemical binding]; other site 1288122010436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1288122010437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1288122010438 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1288122010439 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 1288122010440 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122010441 putative substrate translocation pore; other site 1288122010442 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1288122010443 putative active site [active] 1288122010444 dimerization interface [polypeptide binding]; other site 1288122010445 putative tRNAtyr binding site [nucleotide binding]; other site 1288122010446 hypothetical protein; Reviewed; Region: PRK01637 1288122010447 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1288122010448 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 1288122010449 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1288122010450 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1288122010451 G1 box; other site 1288122010452 putative GEF interaction site [polypeptide binding]; other site 1288122010453 GTP/Mg2+ binding site [chemical binding]; other site 1288122010454 Switch I region; other site 1288122010455 G2 box; other site 1288122010456 G3 box; other site 1288122010457 Switch II region; other site 1288122010458 G4 box; other site 1288122010459 G5 box; other site 1288122010460 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 1288122010461 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 1288122010462 glutamine synthetase; Provisional; Region: glnA; PRK09469 1288122010463 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1288122010464 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1288122010465 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1288122010466 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1288122010467 dimer interface [polypeptide binding]; other site 1288122010468 phosphorylation site [posttranslational modification] 1288122010469 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 1288122010470 ATP binding site [chemical binding]; other site 1288122010471 Mg2+ binding site [ion binding]; other site 1288122010472 G-X-G motif; other site 1288122010473 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 1288122010474 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1288122010475 active site 1288122010476 phosphorylation site [posttranslational modification] 1288122010477 intermolecular recognition site; other site 1288122010478 dimerization interface [polypeptide binding]; other site 1288122010479 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122010480 Walker A motif; other site 1288122010481 ATP binding site [chemical binding]; other site 1288122010482 Walker B motif; other site 1288122010483 arginine finger; other site 1288122010484 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1288122010485 putative transporter; Validated; Region: PRK03818 1288122010486 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 1288122010487 TrkA-C domain; Region: TrkA_C; pfam02080 1288122010488 TrkA-C domain; Region: TrkA_C; pfam02080 1288122010489 AspT/YidE/YbjL antiporter duplication domain; Region: YidE_YbjL_dupl; TIGR01625 1288122010490 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1288122010491 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1288122010492 FeS/SAM binding site; other site 1288122010493 HemN C-terminal domain; Region: HemN_C; pfam06969 1288122010494 Der GTPase activator; Provisional; Region: PRK05244 1288122010495 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1288122010496 G1 box; other site 1288122010497 GTP/Mg2+ binding site [chemical binding]; other site 1288122010498 Switch I region; other site 1288122010499 G2 box; other site 1288122010500 G3 box; other site 1288122010501 Switch II region; other site 1288122010502 G4 box; other site 1288122010503 G5 box; other site 1288122010504 DNA polymerase I; Provisional; Region: PRK05755 1288122010505 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1288122010506 active site 1288122010507 metal binding site 1 [ion binding]; metal-binding site 1288122010508 putative 5' ssDNA interaction site; other site 1288122010509 metal binding site 3; metal-binding site 1288122010510 metal binding site 2 [ion binding]; metal-binding site 1288122010511 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1288122010512 putative DNA binding site [nucleotide binding]; other site 1288122010513 putative metal binding site [ion binding]; other site 1288122010514 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1288122010515 active site 1288122010516 catalytic site [active] 1288122010517 substrate binding site [chemical binding]; other site 1288122010518 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1288122010519 active site 1288122010520 DNA binding site [nucleotide binding] 1288122010521 catalytic site [active] 1288122010522 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1288122010523 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1288122010524 putative acyl-acceptor binding pocket; other site 1288122010525 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 1288122010526 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1288122010527 catalytic residues [active] 1288122010528 hinge region; other site 1288122010529 alpha helical domain; other site 1288122010530 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1288122010531 serine/threonine protein kinase; Provisional; Region: PRK11768 1288122010532 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 1288122010533 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1288122010534 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1288122010535 GTP binding site; other site 1288122010536 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1288122010537 Walker A motif; other site 1288122010538 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1288122010539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1288122010540 DNA-binding site [nucleotide binding]; DNA binding site 1288122010541 FCD domain; Region: FCD; pfam07729 1288122010542 putative transporter; Provisional; Region: PRK10504 1288122010543 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1288122010544 transcriptional repressor RbsR; Provisional; Region: PRK10423 1288122010545 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1288122010546 DNA binding site [nucleotide binding] 1288122010547 domain linker motif; other site 1288122010548 Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli; Region: PBP1_PurR; cd06275 1288122010549 dimerization interface [polypeptide binding]; other site 1288122010550 ligand binding site [chemical binding]; other site 1288122010551 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1288122010552 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1288122010553 substrate binding site [chemical binding]; other site 1288122010554 dimer interface [polypeptide binding]; other site 1288122010555 ATP binding site [chemical binding]; other site 1288122010556 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 1288122010557 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1288122010558 ligand binding site [chemical binding]; other site 1288122010559 dimerization interface [polypeptide binding]; other site 1288122010560 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1288122010561 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1288122010562 TM-ABC transporter signature motif; other site 1288122010563 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 1288122010564 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1288122010565 Walker A/P-loop; other site 1288122010566 ATP binding site [chemical binding]; other site 1288122010567 Q-loop/lid; other site 1288122010568 ABC transporter signature motif; other site 1288122010569 Walker B; other site 1288122010570 D-loop; other site 1288122010571 H-loop/switch region; other site 1288122010572 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1288122010573 D-ribose pyranase; Provisional; Region: PRK11797 1288122010574 potassium transport protein Kup; Provisional; Region: trkD; PRK10745 1288122010575 potassium uptake protein; Region: kup; TIGR00794 1288122010576 regulatory ATPase RavA; Provisional; Region: PRK13531 1288122010577 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 1288122010578 Walker A motif; other site 1288122010579 ATP binding site [chemical binding]; other site 1288122010580 Walker B motif; other site 1288122010581 arginine finger; other site 1288122010582 Protein of unknown function (DUF3763); Region: DUF3763; pfam12592 1288122010583 hypothetical protein; Provisional; Region: yieM; PRK10997 1288122010584 VWA YIEM type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: VWA_YIEM_type; cd01462 1288122010585 metal ion-dependent adhesion site (MIDAS); other site 1288122010586 asparagine synthetase AsnA; Provisional; Region: PRK05425 1288122010587 motif 1; other site 1288122010588 dimer interface [polypeptide binding]; other site 1288122010589 active site 1288122010590 motif 2; other site 1288122010591 motif 3; other site 1288122010592 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1288122010593 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1288122010594 putative DNA binding site [nucleotide binding]; other site 1288122010595 putative Zn2+ binding site [ion binding]; other site 1288122010596 AsnC family; Region: AsnC_trans_reg; pfam01037 1288122010597 FMN-binding protein MioC; Provisional; Region: PRK09004 1288122010598 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1288122010599 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 1288122010600 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1288122010601 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1288122010602 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1288122010603 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 1288122010604 S-adenosylmethionine binding site [chemical binding]; other site 1288122010605 ATP synthase I chain; Region: ATP_synt_I; cl09170 1288122010606 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1288122010607 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1288122010608 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1288122010609 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1288122010610 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1288122010611 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1288122010612 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1288122010613 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1288122010614 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1288122010615 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 1288122010616 Walker A motif; other site 1288122010617 ATP binding site [chemical binding]; other site 1288122010618 Walker B motif; other site 1288122010619 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1288122010620 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1288122010621 core domain interface [polypeptide binding]; other site 1288122010622 delta subunit interface [polypeptide binding]; other site 1288122010623 epsilon subunit interface [polypeptide binding]; other site 1288122010624 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1288122010625 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1288122010626 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1288122010627 alpha subunit interaction interface [polypeptide binding]; other site 1288122010628 Walker A motif; other site 1288122010629 ATP binding site [chemical binding]; other site 1288122010630 Walker B motif; other site 1288122010631 inhibitor binding site; inhibition site 1288122010632 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1288122010633 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1288122010634 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1288122010635 gamma subunit interface [polypeptide binding]; other site 1288122010636 epsilon subunit interface [polypeptide binding]; other site 1288122010637 LBP interface [polypeptide binding]; other site 1288122010638 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 1288122010639 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1288122010640 Substrate binding site; other site 1288122010641 Mg++ binding site; other site 1288122010642 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1288122010643 active site 1288122010644 substrate binding site [chemical binding]; other site 1288122010645 CoA binding site [chemical binding]; other site 1288122010646 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1288122010647 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1288122010648 glutaminase active site [active] 1288122010649 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1288122010650 dimer interface [polypeptide binding]; other site 1288122010651 active site 1288122010652 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1288122010653 dimer interface [polypeptide binding]; other site 1288122010654 active site 1288122010655 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1288122010656 active site 1288122010657 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1288122010658 substrate binding pocket [chemical binding]; other site 1288122010659 membrane-bound complex binding site; other site 1288122010660 hinge residues; other site 1288122010661 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 1288122010662 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122010663 dimer interface [polypeptide binding]; other site 1288122010664 conserved gate region; other site 1288122010665 putative PBP binding loops; other site 1288122010666 ABC-ATPase subunit interface; other site 1288122010667 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 1288122010668 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 1288122010669 dimer interface [polypeptide binding]; other site 1288122010670 conserved gate region; other site 1288122010671 putative PBP binding loops; other site 1288122010672 ABC-ATPase subunit interface; other site 1288122010673 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 1288122010674 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1288122010675 Walker A/P-loop; other site 1288122010676 ATP binding site [chemical binding]; other site 1288122010677 Q-loop/lid; other site 1288122010678 ABC transporter signature motif; other site 1288122010679 Walker B; other site 1288122010680 D-loop; other site 1288122010681 H-loop/switch region; other site 1288122010682 transcriptional regulator PhoU; Provisional; Region: PRK11115 1288122010683 PhoU domain; Region: PhoU; pfam01895 1288122010684 PhoU domain; Region: PhoU; pfam01895 1288122010685 6-phosphogluconate phosphatase; Provisional; Region: PRK10563 1288122010686 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 1288122010687 motif II; other site 1288122010688 cryptic adenine deaminase; Provisional; Region: PRK10027 1288122010689 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1288122010690 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 1288122010691 active site 1288122010692 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 1288122010693 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1288122010694 Predicted peptidase [General function prediction only]; Region: COG4099 1288122010695 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1288122010696 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1288122010697 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1288122010698 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1288122010699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1288122010700 Smr domain; Region: Smr; pfam01713 1288122010701 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1288122010702 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1288122010703 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1288122010704 G1 box; other site 1288122010705 GTP/Mg2+ binding site [chemical binding]; other site 1288122010706 Switch I region; other site 1288122010707 G2 box; other site 1288122010708 Switch II region; other site 1288122010709 G3 box; other site 1288122010710 G4 box; other site 1288122010711 G5 box; other site 1288122010712 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1288122010713 membrane protein insertase; Provisional; Region: PRK01318 1288122010714 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1288122010715 hypothetical protein; Validated; Region: PRK00041 1288122010716 ribonuclease P; Reviewed; Region: rnpA; PRK01732 1288122010717 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399